RNAprobR: An R package for analysis of massive parallel sequencing based RNA structure probing data

This package facilitates analysis of Next Generation Sequencing data for which positional information with a single nucleotide resolution is a key. It allows for applying different types of relevant normalizations, data visualization and export in a table or UCSC compatible bedgraph file.

AuthorLukasz Jan Kielpinski [aut], Nikos Sidiropoulos [cre, aut], Jeppe Vinther [aut]
Date of publicationNone
MaintainerNikos Sidiropoulos <nikos.sidiro@gmail.com>
LicenseGPL (>=2)
Version1.6.0

View on Bioconductor

Files in this package

RNAprobR/DESCRIPTION
RNAprobR/NAMESPACE
RNAprobR/NEWS
RNAprobR/R
RNAprobR/R/auxiliary_functions.R RNAprobR/R/bam2bedgraph.R RNAprobR/R/bed_to_TranscriptDb.R RNAprobR/R/bedgraph2norm.R RNAprobR/R/comp.R RNAprobR/R/compdata.R RNAprobR/R/correct_oversaturation.R RNAprobR/R/dtcr.R RNAprobR/R/finishing.R RNAprobR/R/k2n_calc.R RNAprobR/R/norm2bedgraph.R RNAprobR/R/readsamples.R RNAprobR/R/slograt.R RNAprobR/R/swinsor.R
RNAprobR/RNAprobR.Rproj
RNAprobR/build
RNAprobR/build/vignette.rds
RNAprobR/inst
RNAprobR/inst/CITATION
RNAprobR/inst/doc
RNAprobR/inst/doc/RNAprobR.R
RNAprobR/inst/doc/RNAprobR.Rnw
RNAprobR/inst/doc/RNAprobR.pdf
RNAprobR/inst/extdata
RNAprobR/inst/extdata/RNaseP.bed
RNAprobR/inst/extdata/hrfseq.fa
RNAprobR/inst/extdata/hrfseq.fa.fai
RNAprobR/inst/extdata/k2n_14
RNAprobR/inst/extdata/k2n_16
RNAprobR/inst/extdata/k2n_22
RNAprobR/inst/extdata/k2n_24
RNAprobR/inst/extdata/unique_barcodes14.gz
RNAprobR/inst/extdata/unique_barcodes16.gz
RNAprobR/inst/extdata/unique_barcodes22.gz
RNAprobR/inst/extdata/unique_barcodes24.gz
RNAprobR/man
RNAprobR/man/BED2txDb.Rd RNAprobR/man/GR2norm_df.Rd RNAprobR/man/bam2bedgraph.Rd RNAprobR/man/bedgraph2norm.Rd RNAprobR/man/comp.Rd RNAprobR/man/compdata.Rd RNAprobR/man/correct_oversaturation.Rd RNAprobR/man/dtcr.Rd RNAprobR/man/k2n_calc.Rd RNAprobR/man/norm2bedgraph.Rd RNAprobR/man/norm_df2GR.Rd RNAprobR/man/plotRNA.Rd RNAprobR/man/plotReads.Rd RNAprobR/man/readsamples.Rd RNAprobR/man/slograt.Rd RNAprobR/man/swinsor.Rd RNAprobR/man/swinsor_vector.Rd RNAprobR/man/winsor.Rd
RNAprobR/vignettes
RNAprobR/vignettes/RNAprobR.Rnw
RNAprobR/vignettes/refs.bib
RNAprobR/vignettes/workflow.pdf

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