data/r-bioc-tfbstools-1.28.0+dfsg/DESCRIPTION: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/NAMESPACE: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/NEWS: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/AllClasses.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/AllGenerics.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/DB-methods.r: ASCII text, with very long lines data/r-bioc-tfbstools-1.28.0+dfsg/R/DirichletMixture.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/Enrichment.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/ICM-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/IO.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/JASPAR.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/Motif-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/PFM-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/PWM-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/PairwiseAlignment-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/SiteSet-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/TFFM.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/TFFMseqLogo.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/Wrappers-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/XMatrix-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/XMatrixList-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/coercion-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/show-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/R/util-methods.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/build/vignette.rds: gzip compressed data, from Unix, original size modulo 2^32 502 data/r-bioc-tfbstools-1.28.0+dfsg/data/MA0003.2.rda: gzip compressed data, from Unix, original size modulo 2^32 1335 data/r-bioc-tfbstools-1.28.0+dfsg/data/MA0004.1.rda: gzip compressed data, from Unix, original size modulo 2^32 1170 data/r-bioc-tfbstools-1.28.0+dfsg/data/MA0043.rda: XZ compressed data data/r-bioc-tfbstools-1.28.0+dfsg/data/MA0048.rda: XZ compressed data data/r-bioc-tfbstools-1.28.0+dfsg/inst/CITATION: CSV text data/r-bioc-tfbstools-1.28.0+dfsg/inst/TFBSToolsBuild/build.r: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/TFBSToolsBuild/build2.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/TFBSToolsBuild/timing.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/doc/TFBSTools.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/doc/TFBSTools.Rmd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/MA0001.1.pfm: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/crp0.s: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/hg19.danRer7.net.axt: ASCII text, with very long lines data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/meme.output: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/pfm_all_example.txt: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/tffm_detailed.xml: XML 1.0 document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/extdata/tffm_first_order.xml: XML 1.0 document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/obsolete/PairwiseAlignmentTFBS-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/obsolete/TFBSTools.Rnw: LaTeX 2e document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/inst/obsolete/matrixAligner.c: C source, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/IUPAC2Matrix.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/MA0004.1.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/MotifSet-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/PFMSimilarity-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/PWMSimilarity-methods.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/SitePairSet-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/SitePairSetList-class.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/SiteSet-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/SiteSetList-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/TFBSTools-package.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/TFFM-class.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/XMatrix-class.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/XMatrixList-class.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/calConservation-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/deleteMatrixHavingID-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/dmmEM-methods.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/getEmissionProb.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/getMatrixByID-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/getMatrixSet-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/getPosProb.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/makeFlatFileDir.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/parseMEMEOutput.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/permuteMatrix-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/rPWMDmm-methods.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/readJASPARMatrix.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/readXMLTFFM.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/runMEME-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/sampleRanges.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/searchAln-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/searchPairBSgenome-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/searchSeq-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/seqLogo.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/shannon.entropy.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/toGRangesList-methods.Rd: LaTeX document, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/toICM-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/toPWM-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/man/writeGFF3-methods.Rd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/Makevars: makefile script, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/Makevars.common: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/Makevars.win: makefile script, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/R_init_TFBSTools.c: C source, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/TFBSTools.h: C source, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/src/matrixAlignerDynamic.c: C source, ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_Coercion.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_MEME.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_TFFM.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_XMatrix-class.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_searchSeq.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat/test_PFM.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/tests/testthat.R: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/vignettes/TFBSTools.Rmd: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/vignettes/TFBSTools.bib: BibTeX text file, UTF-8 Unicode text, with very long lines data/r-bioc-tfbstools-1.28.0+dfsg/debian/README.source: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/changelog: UTF-8 Unicode text data/r-bioc-tfbstools-1.28.0+dfsg/debian/control: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/copyright: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/docs: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/patches/Fix_autopkgtest.patch: unified diff output, UTF-8 Unicode text data/r-bioc-tfbstools-1.28.0+dfsg/debian/patches/series: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/rules: a /usr/bin/make -f script, ASCII text executable data/r-bioc-tfbstools-1.28.0+dfsg/debian/salsa-ci.yml: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/source/format: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/tests/control: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/debian/tests/run-unit-test: POSIX shell script, ASCII text executable data/r-bioc-tfbstools-1.28.0+dfsg/debian/upstream/metadata: UTF-8 Unicode text data/r-bioc-tfbstools-1.28.0+dfsg/debian/watch: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/.pc/.version: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/.pc/.quilt_patches: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/.pc/.quilt_series: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/.pc/applied-patches: ASCII text data/r-bioc-tfbstools-1.28.0+dfsg/.pc/Fix_autopkgtest.patch/tests/testthat/test_PFM.R: ASCII text