Files in nearBynding

Discern RNA structure proximal to protein binding

README.md

NEWS

NAMESPACE

DESCRIPTION

build/vignette.rds

R/runStereogeneOnCapR.R R/liftOverToExomicBG.R R/runStereogene.R R/bindingContextDistanceCapR.R R/get_outfiles.R R/CleanBAMtoBG.R R/write_fasta.R R/utilities.R R/bindingContextDistance.R R/write_config.R R/assessGrouping.R R/visualizeCapRStereogene.R R/CleanBEDtoBG.R R/visualizeStereogene.R R/runCapR.R R/processCapRout.R R/getChainChrSize.R R/ExtractTranscriptomeSequence.R R/GenomeMappingToChainFile.R vignettes/all_contexts_line.pdf vignettes/nearBynding.Rmd vignettes/stem_line.pdf

vignettes/stem_heatmap.jpeg

vignettes/all_contexts_heatmap.jpeg

vignettes/chr4and5_sorted.bedGraph

man/getChainChrSize.Rd man/write_config.Rd man/runStereogeneOnCapR.Rd man/nearBynding-package.Rd man/assessGrouping.Rd man/CleanBEDtoBG.Rd man/CleanBAMtoBG.Rd man/ExtractTranscriptomeSequence.Rd man/liftOverToExomicBG.Rd man/visualizeCapRStereogene.Rd man/processCapRout.Rd man/get_outfiles.Rd man/bindingContextDistanceCapR.Rd man/bindingContextDistance.Rd man/visualizeStereogene.Rd man/runStereogene.Rd man/GenomeMappingToChainFile.Rd man/runCapR.Rd man/write_fasta.Rd inst/doc/nearBynding.Rmd inst/doc/nearBynding.pdf inst/doc/nearBynding.R

inst/extdata/transcript_list.Rda

inst/extdata/hairpin_liftOver_chr4and5.dist

inst/extdata/hg19.genome

inst/extdata/bulge_liftOver_chr4and5.dist

inst/extdata/multibranch_liftOver_chr4and5.dist

inst/extdata/Homo_sapiens.GRCh38.chr4&5.gtf

inst/extdata/chr4and5_3UTR.out

inst/extdata/internal_liftOver_chr4and5.dist

inst/extdata/exterior_liftOver_chr4and5.dist

inst/extdata/chr4and5_3UTR.fa

inst/extdata/chr4and5.bam

inst/extdata/chr4and5_sorted.bedGraph

inst/extdata/stem_liftOver_chr4and5.dist

inst/extdata/hg38.genome

nearBynding documentation built on Nov. 8, 2020, 8:15 p.m.