Files in jsemple19/methMatrix
Manipulate Lists of Methylation Matrices
.Rbuildignore
.github/workflows/r.yml
.gitignore
.travis.yml
DESCRIPTION
NAMESPACE
R/TSSgrData.R
R/bam2methMats.R
R/doparImport.R
R/magitterImport.R
R/methMatrixManipulation.R
R/methMatsData.R
R/pacBio_m6A.R
R/sysdata.rda
README.md
data/TSSgr.RData
data/methMats.RData
inst/extData/aln/dS03-N2_20181119.noOL.bam
inst/extData/aln/dS03-N2_20181119.noOL.bam.bai
inst/extData/csv/MatrixLog_ampTSS.csv
inst/extData/csv/MatrixLog_relCoord_ampTSS.csv
inst/extData/genome/ChenKreusSaitoTSS_2827_maxTSSGR.RDS
inst/extData/genome/ChenKreusSaitoTSS_highConf_872.RDS
inst/extData/genome/ChenKreusSaitoTSS_lessConf_1955.RDS
inst/extData/genome/ampliconGR.RDS
inst/extData/genome/ampliconMaxTSSgr.RDS
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic.CGGC_motifs.RDS
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.C.bed
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.CGGC_motifs.RDS
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.G.bed
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.GC.bed
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.fa
inst/extData/genome/c_elegans.PRJNA13758.WS250.genomic_Xchr.fa.fai
inst/extData/rds/allSampleMats_ampTSS_20181119_dS02-4amp.rds
inst/extData/rds/allSampleRelCoordMats_ampTSS_20181119_dS02-4amp.rds
inst/extData/rds/methMats_ampTSS/dS02-182_WBGene00009620.rds
inst/extData/rds/methMats_ampTSS/dS02-182_WBGene00009621.rds
inst/extData/rds/methMats_ampTSS/dS02-182_WBGene00009801.rds
inst/extData/rds/methMats_ampTSS/dS02-182_WBGene00015947.rds
inst/extData/rds/methMats_ampTSS/dS02-182_WBGene00015955.rds
inst/extData/rds/methMats_ampTSS/dS03-N2_WBGene00009620.rds
inst/extData/rds/methMats_ampTSS/dS03-N2_WBGene00009621.rds
inst/extData/rds/methMats_ampTSS/dS03-N2_WBGene00009801.rds
inst/extData/rds/methMats_ampTSS/dS03-N2_WBGene00015947.rds
inst/extData/rds/methMats_ampTSS/dS03-N2_WBGene00015955.rds
inst/extData/rds/relCoord_ampTSS/dS02-182_WBGene00009620.rds
inst/extData/rds/relCoord_ampTSS/dS02-182_WBGene00009621.rds
inst/extData/rds/relCoord_ampTSS/dS02-182_WBGene00009801.rds
inst/extData/rds/relCoord_ampTSS/dS02-182_WBGene00015947.rds
inst/extData/rds/relCoord_ampTSS/dS02-182_WBGene00015955.rds
inst/extData/rds/relCoord_ampTSS/dS03-N2_WBGene00009620.rds
inst/extData/rds/relCoord_ampTSS/dS03-N2_WBGene00009621.rds
inst/extData/rds/relCoord_ampTSS/dS03-N2_WBGene00009801.rds
inst/extData/rds/relCoord_ampTSS/dS03-N2_WBGene00015947.rds
inst/extData/rds/relCoord_ampTSS/dS03-N2_WBGene00015955.rds
man/TSS.Rd
man/allNAs.Rd
man/changeAnchorCoord.Rd
man/combineCGGCgr.Rd
man/combineCGandGCmatrices.Rd
man/convertGRtoRelCoord.Rd
man/convertRelCoordtoGR.Rd
man/fiberseqBedToBigwig.Rd
man/fiberseqBedToMatrix.Rd
man/getAllSampleMetaMethFreq.Rd
man/getFullMatrices.Rd
man/getMatrixLog.Rd
man/getMetaMethFreq.Rd
man/getMethFreqGR.Rd
man/getReadMatrix.Rd
man/getRelativeCoord.Rd
man/getRelativeCoordMats.Rd
man/getSingleMoleculeMatrices.Rd
man/grlToDf.Rd
man/makeATgrObj.Rd
man/makeCGorGCbed.Rd
man/makeDirs.Rd
man/matToGR.Rd
man/mergeSampleMats.Rd
man/methMats.Rd
man/parseMatchString.Rd
man/pileupToConversionStatus.Rd
man/plotAllMatrices.Rd
man/plotDSMFmetageneDF.Rd
man/plotSingleMolecules.Rd
man/plotSingleMoleculesWithAvr.Rd
man/poorBisulfiteConversion.Rd
man/reexports.Rd
methMatrix.Rproj
tests/testthat.R
tests/testthat/test-bam2methMats.R
tests/testthat/test-methMatrixManipulation.R
vignettes/bwaMethDSMFanalysis.R
vignettes/bwaMethDSMFanalysis.Rmd
vignettes/bwaMethDSMFanalysis.html
vignettes/bwaMethDSMFanalysis.md
