Files in AlexisHardy/DNAModAnnot
Toolbox for DNA Modifications filtering and annotation

.DS_Store
.Rbuildignore
.gitattributes
.gitignore
DESCRIPTION
DNAModAnnot.Rproj
DNAModAnnot_0.0.0.9019.pdf
DNAModAnnot_0.0.0.9019.tar.gz
LICENSE
Meta/vignette.rds
NAMESPACE
NEWS.txt
R/DaLoad.R R/FDREst.R R/Filter.R R/GloModAn.R R/ModAnnot.R R/SeQual.R README.md doc/DNAModAnnot-basic-example.R doc/DNAModAnnot-basic-example.Rmd
doc/DNAModAnnot-basic-example.html
inst/extdata/FAB39088-288418386-Chr1.CpG.call_mods.frequency.tsv
inst/extdata/PTET_MonoNuc_3-2new.pe.sca171819.sorted.bam
inst/extdata/PTET_MonoNuc_3-2new.pe.sca171819.sorted.bam.bai
inst/extdata/ipdRatio6mATsites.bw
inst/extdata/ptet51Genes.bam
inst/extdata/ptet51Genes.bam.bai
inst/extdata/ptetraurelia.bases.sca171819.csv
inst/extdata/ptetraurelia.gene_expression.sca171819.tsv
inst/extdata/ptetraurelia.modifications.sca171819.gff
inst/extdata/ptetraurelia_mac_51_annotation_v2.0_sca171819.gff3
inst/extdata/ptetraurelia_mac_51_sca171819.fa
inst/extdata/ptetraurelia_mac_51_sca171819.fa.fai
man/AdaptedIdeogramTrackWithoutBandsData.Rd man/AddToModBasePropDistFromFeaturePlot.Rd man/DrawBarplotBothStrands.Rd man/DrawContigCumulLength.Rd man/DrawDistriHistBox.Rd man/DrawFdrEstList.Rd man/DrawLogoPosNegAxes.Rd man/DrawModBaseCountsWithinFeature.Rd man/DrawModBasePropByFeature.Rd man/DrawModBasePropDistFromFeature.Rd man/DrawModLogo.Rd man/DrawParamPerModBaseCategories.Rd man/ExportFilesForGViz.Rd man/ExtractListModPosByModMotif.Rd man/FiltContig.Rd man/FiltDeepSignal.Rd man/FiltFdrBased.Rd man/FiltPacBio.Rd man/FiltParam.Rd man/GetAssemblyReport.Rd man/GetContigCumulLength.Rd man/GetDistFromFeaturePos.Rd man/GetFdrBasedThreshLimit.Rd man/GetFdrEstListByThresh.Rd man/GetGRangesWindowSeqandParam.Rd man/GetGenomeGRanges.Rd man/GetGposCenterFromGRanges.Rd man/GetListCountsByDist.Rd man/GetMeanParamByContig.Rd man/GetModBaseCountsByFeature.Rd man/GetModBaseCountsWithinFeature.Rd man/GetModRatioByContig.Rd man/GetModReportDeepSignal.Rd man/GetModReportPacBio.Rd man/GetSeqPctByContig.Rd man/ImportBamExtendedAnnotationTrack.Rd man/ImportDeepSignalModFrequency.Rd man/ImportPacBioCSV.Rd man/ImportPacBioGFF.Rd man/PredictMissingAnnotation.Rd man/addLetter.Rd man/dot-AddModMotifPctToDf.Rd man/dot-CalculateNLx.Rd man/dot-DrawFdrEst.Rd man/dot-DrawFdrSegmentsXYAxis.Rd man/dot-DrawPolygonRange.Rd man/dot-EstimateFdr.Rd man/dot-ExportBamForGviz.Rd man/dot-ExportBigwigForGviz.Rd man/dot-ExportFastaForGviz.Rd man/dot-GetCountsByDist.Rd man/dot-GetCumsumTableParamByMotif.Rd man/dot-GetModBaseCountsCategories.Rd man/dot-GetPosDistFromFeaturePos.Rd man/dot-IncludeModPosInMot.Rd man/dot-rescale.Rd man/letterA.Rd man/letterC.Rd man/letterG.Rd man/letterT.Rd man/letterU.Rd
vignettes/.gitignore
vignettes/DNAModAnnot-basic-example.Rmd
vignettes/DNAModAnnot_diagram_and_example.jpg
vignettes/DNAModAnnot_logo.jpg
AlexisHardy/DNAModAnnot documentation built on Feb. 27, 2023, 12:03 a.m.