BoolNet
Construction, Simulation and Analysis of Boolean Networks
v2.1.9
·
Oct 2, 2023
·
Artistic-2.0
Description
Functions to reconstruct, generate, and simulate synchronous, asynchronous, probabilistic, and temporal Boolean networks. Provides also functions to analyze and visualize attractors in Boolean networks <doi:10.1093/bioinformatics/btq124>.
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Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-macos-arm64 | NOTE |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | NOTE |
| r-release-macos-x86_64 | NOTE |
| r-release-windows-x86_64 | NOTE |
Check details (14 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state. In this case, the sequence can be empty if the start state is an attractor state.
| ^
checkRd: (-1) plotSequence.Rd:42: Lost braces; missing escapes or markup?
42 | Specifies whether the actual attractor states are included in the plot or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) sequenceToLaTeX.Rd:37: Lost braces; missing escapes or markup?
37 | Specifies whether the actual attractor states are included in the table or not (see also \code{\link{getPathToAttractor}}). If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. If {includeAttractorStates = "none"}, the sequence ends with the last non-attractor state.
| ^
checkRd: (-1) simulateSymbolicModel.Rd:64: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:66-70: Lost braces in \itemize; meant \describe ?
checkRd: (-1) simulateSymbolicModel.Rd:72-73: Lost braces in \itemize; meant \describe ?
checkRd: (-1) testNetworkProperties.Rd:131: Lost braces; missing escapes or markup?
131 | If {perturb="functions"} or \code{perturb="transitions"} and \code{accumulate=FALSE}, the function returns a vector of percentages of original attractors found in each of the perturbed copies of the original network. If \code{accumulate=TRUE}, the function returns the overall percentage of original attractors found in all perturbed copies.
| ^
checkRd: (-1) testNetworkProperties.Rd:140: Lost braces
140 | code{params} can hold parameters \code{numSamples, flipBits} corresponding to the parameters of \code{\link{perturbTrajectories}} that define how many initial states are drawn and how many bits are flipped.
| ^
Additional Issues
musl
Details →
Check History
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) getPathToAttractor.Rd:23: Lost braces; missing escapes or markup?
23 | Specifies whether the actual attractor states are included in the resulting table or not. If \code{includeAttractorStates = "all"} (which is the default behaviour), the sequence ends when the attractor was traversed once. If \code{includeAttractorStates = "first"}, only the first state of attractor is added to the sequence. This corresponds to the behaviour prior to \pkg{BoolNet} version 1.5. If {includeAt
Reverse Dependencies (5)
depends
imports
Dependency Network
Version History
new
2.1.9
Mar 9, 2026