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TFBSTools

Bioc current

Software Package for Transcription Factor Binding Site (TFBS) Analysis

v1.50.0 · software · GPL-2
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Release Lineage

Entered 2.13 · Oct 15, 2013

Current · Requires R 4.6

1.0 In 26 of 49 releases 3.23

Description

TFBSTools is a package for the analysis and manipulation of transcription factor binding sites. It includes matrices conversion between Position Frequency Matirx (PFM), Position Weight Matirx (PWM) and Information Content Matrix (ICM). It can also scan putative TFBS from sequence/alignment, query JASPAR database and provides a wrapper of de novo motif discovery software.

Code

Code metrics have not been computed for this package yet.

Topics

Software › BiologicalQuestion › MotifAnnotation
Software › BiologicalQuestion › GeneRegulation
Software › BiologicalQuestion › MotifDiscovery
Software › AssayDomain › Transcription
Software › WorkflowStep › Alignment

Depended on by (26)

Bioconductor (25)

ATACseqTFEA chromVAR enhancerHomologSearch epiSeeker esATAC GRaNIE MAGAR MatrixRider MethReg monaLisa motifmatchr motifStack pageRank primirTSS universalmotif spatzie JASPAR2018 JASPAR2020 JASPAR2022 CAGEWorkflow ATACCoGAPS enrichTF HMMRATAC JASPAR looplook

CRAN (1)

Signac

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