MotifDb: An Annotated Collection of Protein-DNA Binding Sequence Motifs

More than 2000 annotated position frequency matrices from nine public sources, for multiple organisms.

Author
Paul Shannon
Date of publication
None
Maintainer
Paul Shannon <pshannon@systemsbiology.org>
License
Artistic-2.0 | file LICENSE
Version
1.16.0

View on Bioconductor

Man pages

export
export
MotifDb
MotifDb: An Annotated Collection of DNA-binding sequence...
MotifList-class
MotifList
query
query
subset
subset

Files in this package

MotifDb/DESCRIPTION
MotifDb/LICENSE
MotifDb/NAMESPACE
MotifDb/NEWS
MotifDb/R
MotifDb/R/MotifList-class.R
MotifDb/R/zzz.R
MotifDb/build
MotifDb/build/vignette.rds
MotifDb/inst
MotifDb/inst/doc
MotifDb/inst/doc/MotifDb.R
MotifDb/inst/doc/MotifDb.Rnw
MotifDb/inst/doc/MotifDb.pdf
MotifDb/inst/extdata
MotifDb/inst/extdata/ScerTF.RData
MotifDb/inst/extdata/cisbp.RData
MotifDb/inst/extdata/flyFactorSurvey.RData
MotifDb/inst/extdata/hPDI.RData
MotifDb/inst/extdata/jaspar.RData
MotifDb/inst/extdata/jaspar2014.RData
MotifDb/inst/extdata/jolma2013.RData
MotifDb/inst/extdata/stamlab.RData
MotifDb/inst/extdata/uniprobe.RData
MotifDb/inst/makefile
MotifDb/inst/scripts
MotifDb/inst/scripts/import
MotifDb/inst/scripts/import/HOCOMOCO
MotifDb/inst/scripts/import/HOCOMOCO/import.R
MotifDb/inst/scripts/import/HOCOMOCO/import_functional_only_matrices.R
MotifDb/inst/scripts/import/HOCOMOCO/test.R
MotifDb/inst/scripts/import/HOCOMOCO/test.txt
MotifDb/inst/scripts/import/README
MotifDb/inst/scripts/import/ScerTF
MotifDb/inst/scripts/import/ScerTF/import.R
MotifDb/inst/scripts/import/ScerTF/test.R
MotifDb/inst/scripts/import/cisbp
MotifDb/inst/scripts/import/cisbp/cisbp-metadata-6559-matrices.Rdata
MotifDb/inst/scripts/import/cisbp/import.R
MotifDb/inst/scripts/import/cisbp/test.R
MotifDb/inst/scripts/import/demo
MotifDb/inst/scripts/import/demo/import.R
MotifDb/inst/scripts/import/demo/md-raw.tsv
MotifDb/inst/scripts/import/demo/sample.pcm
MotifDb/inst/scripts/import/fbgns.RData
MotifDb/inst/scripts/import/flyFactorSurvey
MotifDb/inst/scripts/import/flyFactorSurvey/import.R
MotifDb/inst/scripts/import/flyFactorSurvey/test.R
MotifDb/inst/scripts/import/hPDI
MotifDb/inst/scripts/import/hPDI/import.R
MotifDb/inst/scripts/import/hPDI/test.R
MotifDb/inst/scripts/import/importAll.R
MotifDb/inst/scripts/import/jaspar
MotifDb/inst/scripts/import/jaspar/import.R
MotifDb/inst/scripts/import/jaspar/test.R
MotifDb/inst/scripts/import/jaspar2014
MotifDb/inst/scripts/import/jaspar2014/import.R
MotifDb/inst/scripts/import/jaspar2014/jaspar2014
MotifDb/inst/scripts/import/jaspar2014/jaspar2014/MATRIX_ANNOTATION.txt
MotifDb/inst/scripts/import/jaspar2014/jaspar2014/MATRIX_PROTEIN.txt
MotifDb/inst/scripts/import/jaspar2014/jaspar2014/MATRIX_SPECIES.txt
MotifDb/inst/scripts/import/jaspar2014/jaspar2014/Matrix.txt
MotifDb/inst/scripts/import/jaspar2014/jaspar2014/matrix_data.txt
MotifDb/inst/scripts/import/jaspar2014/md-raw.tsv
MotifDb/inst/scripts/import/jaspar2014/sample.pcm
MotifDb/inst/scripts/import/jaspar2014/test.R
MotifDb/inst/scripts/import/jolma2013
MotifDb/inst/scripts/import/jolma2013/import.R
MotifDb/inst/scripts/import/jolma2013/test.R
MotifDb/inst/scripts/import/stamlab
MotifDb/inst/scripts/import/stamlab/import.R
MotifDb/inst/scripts/import/stamlab/test.R
MotifDb/inst/scripts/import/uniprobe
MotifDb/inst/scripts/import/uniprobe/import.R
MotifDb/inst/scripts/import/uniprobe/test.R
MotifDb/inst/unitTests
MotifDb/inst/unitTests/test_MotifDb.R
MotifDb/inst/vanillaTest.R
MotifDb/man
MotifDb/man/MotifDb.Rd
MotifDb/man/MotifList-class.Rd
MotifDb/man/export.Rd
MotifDb/man/query.Rd
MotifDb/man/subset.Rd
MotifDb/notInstalled
MotifDb/notInstalled/hidden
MotifDb/notInstalled/hidden/MotifDb-package.Rd
MotifDb/notInstalled/hidden/MotifList.Rd-hidden
MotifDb/notInstalled/hidden/ScerTF.Rd
MotifDb/notInstalled/hidden/flyFactorSurvey.Rd
MotifDb/notInstalled/hidden/hPDI.Rd
MotifDb/notInstalled/hidden/jaspar.Rd
MotifDb/notInstalled/hidden/matrices.Rd
MotifDb/notInstalled/hidden/tbl.md.Rd
MotifDb/notInstalled/hidden/uniprobe.Rd
MotifDb/test.txt
MotifDb/tests
MotifDb/tests/runTests.R
MotifDb/vignettes
MotifDb/vignettes/Makefile
MotifDb/vignettes/MotifDb-egr1.pdf
MotifDb/vignettes/MotifDb-logo1.pdf
MotifDb/vignettes/MotifDb-logo2.pdf
MotifDb/vignettes/MotifDb-logo3.pdf
MotifDb/vignettes/MotifDb-logo4.pdf
MotifDb/vignettes/MotifDb-logo5.pdf
MotifDb/vignettes/MotifDb-logo6.pdf
MotifDb/vignettes/MotifDb.Rnw
MotifDb/vignettes/MotifDb.aux
MotifDb/vignettes/MotifDb.log
MotifDb/vignettes/MotifDb.out
MotifDb/vignettes/MotifDb.tex
MotifDb/vignettes/MotifDb.toc
MotifDb/vignettes/programmersGuide.txt