falcon

Finding Allele-Specific Copy Number in Next-Generation Sequencing Data

v0.2 · Apr 21, 2016 · GPL (>= 2)

Description

This is a method for Allele-specific DNA Copy Number Profiling using Next-Generation Sequencing. Given the allele-specific coverage at the variant loci, this program segments the genome into regions of homogeneous allele-specific copy number. It requires, as input, the read counts for each variant allele in a pair of case and control samples. For detection of somatic mutations, the case and control samples can be the tumor and normal sample from the same individual.

Downloads

156

Last 30 days

20712th

156

Last 90 days

156

Last year

CRAN Check Status

4 NOTE

10 OK

Show all 14 flavors

Flavor	Status	Time
r-devel-linux-x86_64-debian-clang	NOTE	26.9s
r-devel-linux-x86_64-debian-gcc	NOTE	20.7s
r-devel-linux-x86_64-fedora-clang	NOTE	40.1s
r-devel-linux-x86_64-fedora-gcc	NOTE	38.9s
r-devel-macos-arm64	OK	12s
r-devel-windows-x86_64	OK	45s
r-oldrel-macos-arm64	OK
r-oldrel-macos-x86_64	OK	23s
r-oldrel-windows-x86_64	OK	45s
r-patched-linux-x86_64	OK	24.8s
r-release-linux-x86_64	OK	24.7s
r-release-macos-arm64	OK
r-release-macos-x86_64	OK	27s
r-release-windows-x86_64	OK	45s

Check details (14 non-OK)

NOTE r-devel-linux-x86_64-debian-clang

CRAN incoming feasibility

Maintainer: ‘Hao Chen <hxchen@ucdavis.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hao",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "hxchen@ucdavis.edu"),
               person(given = c("Nancy", "R."),
                      family = "Zhang",
                      role = "aut"))
as necessary.

NOTE r-devel-linux-x86_64-debian-gcc

CRAN incoming feasibility

Maintainer: ‘Hao Chen <hxchen@ucdavis.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hao",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "hxchen@ucdavis.edu"),
               person(given = c("Nancy", "R."),
                      family = "Zhang",
                      role = "aut"))
as necessary.

NOTE r-devel-linux-x86_64-fedora-clang

compiled code

File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.

NOTE r-devel-linux-x86_64-fedora-gcc

compiled code

File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.

OK r-devel-macos-arm64

OK r-devel-windows-x86_64

OK r-oldrel-macos-arm64

OK r-oldrel-macos-x86_64

OK r-oldrel-windows-x86_64

OK r-patched-linux-x86_64

OK r-release-linux-x86_64

OK r-release-macos-arm64

OK r-release-macos-x86_64

OK r-release-windows-x86_64

Check History

NOTE 10 OK · 4 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 9, 2026

NOTE r-devel-linux-x86_64-debian-clang

CRAN incoming feasibility

Maintainer: ‘Hao Chen <hxchen@ucdavis.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hao",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "hxchen@ucdavis.edu"),
               person(given = c("Nancy", "R."),
                      family = "Zhang",
                      role = "aut"))
as necessary.

NOTE r-devel-linux-x86_64-debian-gcc

CRAN incoming feasibility

Maintainer: ‘Hao Chen <hxchen@ucdavis.edu>’

No Authors@R field in DESCRIPTION.
Please add one, modifying
  Authors@R: c(person(given = "Hao",
                      family = "Chen",
                      role = c("aut", "cre"),
                      email = "hxchen@ucdavis.edu"),
               person(given = c("Nancy", "R."),
                      family = "Zhang",
                      role = "aut"))
as necessary.

NOTE r-devel-linux-x86_64-fedora-clang

compiled code

File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.

NOTE r-devel-linux-x86_64-fedora-gcc

compiled code

File ‘falcon/libs/falcon.so’:
  Found no calls to: ‘R_registerRoutines’, ‘R_useDynamicSymbols’

It is good practice to register native routines and to disable symbol
search.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.

Version History

new 0.2 Mar 10, 2026