Files in jknightlab/AltHapAlignR
AltHapAlignR: Haplotype-specific mapping in RNA-seq
.Rbuildignore
.gitignore
AltHapAlignR.Rproj
DESCRIPTION
NAMESPACE
R/EDfromBams.R
R/findHaps.R
README.md
img/output.pdf
img/output.png
inst/extdata/example_ed_table.txt
inst/extdata/example_gencode.v21.pc_genes.txt
inst/extdata/example_paired_mapping_rates.txt
inst/extdata/gencode.v21.chr_patch_hapl_HLA.annotation.gtf
inst/extdata/mapping2apd.bam
inst/extdata/mapping2cox.bam
inst/extdata/mapping2dbb.bam
inst/extdata/mapping2mann.bam
inst/extdata/mapping2mcf.bam
inst/extdata/mapping2pgf.bam
inst/extdata/mapping2qbl.bam
inst/extdata/mapping2ssto.bam
inst/scripts/make_a_table.py
inst/scripts/mapping2theMHCRef.sh
inst/scripts/wrapper.sh
man/EDfromBams.Rd
man/getGeneList.Rd
man/getMappingRatesFromPairs.Rd
man/heatmapByShortestPaths.Rd
vignettes/include/captions.tex
