Files in cag1343/LORD
Long-read Analysis of transcription Termination Estimation and Recognition
.DS_Store
.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
LATER.Rproj
LICENSE.md
NAMESPACE
R/LATER-class.R
R/LATER-plot.R
R/calculatePromoterDominance.R
R/countLinks.R
R/estimatePromoterDominance.R
R/estimateTranscriptionalBias.R
R/isoform_links_database-class.R
R/isoform_links_database-data.R
R/isoform_links_database-helper.R
R/prepareLinksDatabase.R
README.html
README.md
inst/.DS_Store
inst/exdata/.DS_Store
inst/exdata/dmel_reference_annotation.gtf.gz
inst/exdata/genomeAlignment.bed
inst/exdata/short_read_junctions.SJ.out.tab
inst/exdata/testBam.bam
inst/exdata/testBam.bam.bai
man/IsoformDatabase-class.Rd
man/IsoformDatabase.Rd
man/LATER-class.Rd
man/LATER.Rd
man/TESCoordinate.base-IsoformDatabase-method.Rd
man/TESCoordinate.base-set-IsoformDatabase-method.Rd
man/TESCoordinate.base-set.Rd
man/TESCoordinate.base.Rd
man/TESCoordinate.bins-IsoformDatabase-method.Rd
man/TESCoordinate.bins-set.Rd
man/TESCoordinate.bins.Rd
man/TSSCoordinate.base-IsoformDatabase-method.Rd
man/TSSCoordinate.base.Rd
man/TSSCoordinate.bins-IsoformDatabase-method.Rd
man/TSSCoordinate.bins-set.Rd
man/TSSCoordinate.bins.Rd
man/add3pEndDatabase-IsoformDatabase-method.Rd
man/addPromoterDatabase-IsoformDatabase-method.Rd
man/calculatePromoterDominance.Rd
man/countLinks.Rd
man/dominance-LATER-method.Rd
man/dominance-set-LATER-method.Rd
man/estimatePromoterDominance.Rd
man/estimateTranscriptionalBias.Rd
man/isoform_database-set-IsoformDatabase-method.Rd
man/isoform_database-set.Rd
man/plotGeneBias.Rd
man/plotTranscriptionalBias.Rd
man/prepareForCountEnds.Rd
man/prepareForCountStarts.Rd
man/prepareIsoformDatabase.Rd
man/prepareLinksDatabase.Rd
man/readAssignments-LATER-method.Rd
man/readTESassignment.Rd
man/readTSSassignment.Rd
man/result-LATER-method.Rd
man/result-set-LATER-method.Rd
man/show-LATER-method.Rd
man/show.Rd
man/showGene-IsoformDatabase-method.Rd
man/showGene.Rd
man/showLinks-IsoformDatabase-method.Rd
man/showLinks-set-IsoformDatabase-method.Rd
man/showLinks-set.Rd
man/showLinks.Rd
man/stats-LATER-method.Rd
man/stats-set-LATER-method.Rd
man/strandSort.Rd
tests/testthat.R
tests/testthat/test-prepareLinksDatabase.R
vignettes/.gitignore
vignettes/LATER.v1.0.0.Rmd
