countLines

A character vector (or other object; see methods
    defined on this generic) giving the directory path (relative or
    absolute) of files whose lines are to be counted.

dirPath

The (<code><a rd-options="" href="/link/grep?package=ShortRead&version=1.30.0" data-mini-rdoc="ShortRead::grep">grep</a></code>-style) pattern describing files
 whose lines are to be counted. The default (<code>character(0)</code>)
 results in line counts for all files in the directory.

pattern

Additional arguments, passed internally to list.files. See
 <code><a rd-options="" href="/link/list.files?package=ShortRead&version=1.30.0" data-mini-rdoc="ShortRead::list.files">list.files</a></code>.

A <code>logical(1)</code> indicating whether elements of
 the returned vector should be named with the base (file) name
 (default; <code>useFullName=FALSE</code>) or the full path name
 (<code>useFullName=TRUE</code>).

useFullName

<code>countLines</code> visits all files in a directory path <code>dirPath</code>
 whose base (i.e., file) name matches <code>pattern</code>. Lines in the file
 are counted as the number of new line characters.

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

countLines function

The (<code><a href="grep" rd-options="">grep</a></code>-style) pattern describing files
 whose lines are to be counted. The default (<code>character(0)</code>)
 results in line counts for all files in the directory.

Additional arguments, passed internally to list.files. See
 <code><a href="list.files" rd-options="">list.files</a></code>.

<code>countLines</code> visits all files in a directory path <code>dirPath</code>
 whose base (i.e., file) name matches <code>pattern</code>. Lines in the file
 are counted as the number of new line characters.

countLines: Count lines in all (text) files in a directory whose file name matches a pattern

Description

Usage

Arguments

Value

Examples