prepareJunctionQuantSTAR: Prepare user-provided files to be loaded into psichomics

Description Usage Arguments Value Examples

View source: R/data_local.R

Description

Prepare user-provided files to be loaded into psichomics

Usage

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prepareJunctionQuantSTAR(..., startOffset = -1, endOffset = +1)

prepareGeneQuantSTAR(
  ...,
  strandedness = c("unstranded", "stranded", "stranded (reverse)")
)

Arguments

...

Character: path of (optionally named) input files (see Examples)

startOffset

Numeric: value to offset start position

endOffset

Numeric: value to offset end position

strandedness

Character: strandedness of RNA-seq protocol; may be one of the following: unstraded, stranded or stranded (reverse)

Value

Prepared file (if output != NULL) and object

Examples

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## Not run: 
prepareJunctionQuant("Control rep1"=junctionFile1,
                     "Control rep2"=junctionFile2,
                     "KD rep1"=junctionFile3,
                     "KD rep2"=junctionFile4)

## End(Not run)
## Not run: 
prepareGeneQuant("Control rep1"=geneCountFile1,
                 "Control rep2"=geneCountFile2,
                 "KD rep1"=geneCountFile3,
                 "KD rep2"=geneCountFile4)

## End(Not run)

psichomics documentation built on Nov. 8, 2020, 5:44 p.m.