Files in vbusa1/nearBynding
Discern RNA structure proximal to protein binding
.Rbuildignore
.gitignore
DESCRIPTION
NAMESPACE
NEWS
R/CleanBAMtoBG.R
R/CleanBEDtoBG.R
R/ExtractTranscriptomeSequence.R
R/GenomeMappingToChainFile.R
R/assessGrouping.R
R/bindingContextDistance.R
R/bindingContextDistanceCapR.R
R/getChainChrSize.R
R/get_outfiles.R
R/liftOverToExomicBG.R
R/processCapRout.R
R/runCapR.R
R/runStereogene.R
R/runStereogeneOnCapR.R
R/symmetryCapR.R
R/symmetryContext.R
R/utilities.R
R/visualizeCapRStereogene.R
R/visualizeStereogene.R
R/write_config.R
R/write_fasta.R
README.md
inst/extdata/Homo_sapiens.GRCh38.chr4&5.gtf
inst/extdata/bulge_liftOver_chr4and5.dist
inst/extdata/chr4and5.bam
inst/extdata/chr4and5_3UTR.fa
inst/extdata/chr4and5_3UTR.out
inst/extdata/chr4and5_sorted.bedGraph
inst/extdata/exterior_liftOver_chr4and5.dist
inst/extdata/hairpin_liftOver_chr4and5.dist
inst/extdata/hg19.genome
inst/extdata/hg38.genome
inst/extdata/internal_liftOver_chr4and5.dist
inst/extdata/multibranch_liftOver_chr4and5.dist
inst/extdata/stem_liftOver_chr4and5.dist
inst/extdata/transcript_list.Rda
man/CleanBAMtoBG.Rd
man/CleanBEDtoBG.Rd
man/ExtractTranscriptomeSequence.Rd
man/GenomeMappingToChainFile.Rd
man/assessGrouping.Rd
man/bindingContextDistance.Rd
man/bindingContextDistanceCapR.Rd
man/getChainChrSize.Rd
man/get_outfiles.Rd
man/liftOverToExomicBG.Rd
man/nearBynding-package.Rd
man/processCapRout.Rd
man/runCapR.Rd
man/runStereogene.Rd
man/runStereogeneOnCapR.Rd
man/symmetryCapR.Rd
man/symmetryContext.Rd
man/visualizeCapRStereogene.Rd
man/visualizeStereogene.Rd
man/write_config.Rd
man/write_fasta.Rd
vignettes/all_contexts_heatmap.jpeg
vignettes/all_contexts_line.pdf
vignettes/chr4and5_3UTR.size
vignettes/chr4and5_sorted.bedGraph
vignettes/nearBynding.Rmd
vignettes/stem_heatmap.jpeg
vignettes/stem_line.pdf
vignettes/test.chain
