deprecated

defunct

basePath

srapply

readAligned,BamFile-method

These functions were introduced but are now deprecated or defunct.

manip

This package implements sampling, iteration, and input of
FASTQ files. The package includes functions for filtering and
trimming reads, and for generating a quality assessment report.
Data are represented as DNAStringSet-derived objects, and
easily manipulated for a diversity of purposes.  The package
also contains legacy support for early single-end, ungapped
alignment formats.

Bioconductor Package Maintainer

ShortRead

FASTQ input and manipulation

deprecated function

These functions were introduced but are now deprecated or defunct.

deprecated: Deprecated and defunct functions

Description

Arguments

Details