acc_counts: Accessors for ASpliCounts object

Description Usage Arguments Value Author(s) Examples

Description

Accessors for ASpliCounts object

Usage

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Arguments

x

An ASpliCounts object

Value

Returns dataframes with counts by sample and genomic metadata

Author(s)

Estefania Mancini, Marcelo Yanovsky, Ariel Chernomoretz

Examples

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chr14 <- system.file("extdata","chr14.sqlite", package="ASpli")
genome <- loadDb(chr14)
features <- binGenome(genome)
library(RNAseqData.HNRNPC.bam.chr14)
targets <- data.frame(bam=RNAseqData.HNRNPC.bam.chr14_BAMFILES,
                       condition=c(rep("CT",4),rep("KD",4)))
bam <- loadBAM(targets)
counts <- readCounts(features, bam,  l=100L, maxISize=50000);
countsb(counts)
countse1i(counts)
countsg(counts)
countsie2(counts)
countsj(counts)
rdsg(counts)
rdsb(counts)

estepi/ASpli documentation built on May 16, 2019, 8:53 a.m.