BCRANK: Predicting binding site consensus from ranked DNA sequences

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Functions and classes for de novo prediction of transcription factor binding consensus by heuristic search

Author
Adam Ameur <Adam.Ameur@genpat.uu.se>
Date of publication
None
Maintainer
Adam Ameur <Adam.Ameur@genpat.uu.se>
License
GPL-2
Version
1.36.0

View on Bioconductor

Man pages

bcrank
BCRANK: predicting binding site consensus from ranked DNA...
BCRANK-internal
BCRANK-internal
BCRANKmatch-class
Class "BCRANKmatch"
BCRANKout
BCRANK results for USF1 ChIP-chip data
BCRANKresult-class
Class "BCRANKresult"
BCRANKsearch-class
Class "BCRANKsearch"
matchingSites
Report IUPAC consensus occurrences in a fasta file

Files in this package

BCRANK/DESCRIPTION
BCRANK/NAMESPACE
BCRANK/R
BCRANK/R/AllClasses.R
BCRANK/R/AllGenerics.R
BCRANK/R/BCRANK.R
BCRANK/R/methods-BCRANKmatch.R
BCRANK/R/methods-BCRANKresult.R
BCRANK/R/methods-BCRANKsearch.R
BCRANK/build
BCRANK/build/vignette.rds
BCRANK/data
BCRANK/data/BCRANKout.rda
BCRANK/inst
BCRANK/inst/Exfiles
BCRANK/inst/Exfiles/USF1_small.fa
BCRANK/inst/doc
BCRANK/inst/doc/BCRANK.R
BCRANK/inst/doc/BCRANK.Rnw
BCRANK/inst/doc/BCRANK.pdf
BCRANK/man
BCRANK/man/BCRANK-internal.Rd
BCRANK/man/BCRANKmatch-class.Rd
BCRANK/man/BCRANKout.Rd
BCRANK/man/BCRANKresult-class.Rd
BCRANK/man/BCRANKsearch-class.Rd
BCRANK/man/bcrank.Rd
BCRANK/man/matchingSites.Rd
BCRANK/src
BCRANK/src/init.c
BCRANK/src/match_consensus.c
BCRANK/src/match_consensus.h
BCRANK/vignettes
BCRANK/vignettes/BCRANK.Rnw
BCRANK/vignettes/BCRANK_intro_fig1.pdf
BCRANK/vignettes/BCRANK_intro_fig2.pdf