FASTX::ScriptHelper - Shared routines for binaries using FASTX::Reader and FASTX::PE.
version 1.0.4
Initialize a new FASTX::ScriptHelper object. Notable parameters:
arguments: sequenceName, sequenceComment, sequence
Prints a sequence in FASTA format.
arguments: sequenceName, sequenceComment, sequence, Quality
Prints a sequence in FASTQ format.
arguments: sequence
Returns the reverse complementary of a sequence
Returns true if the sequence only contains DNA-IUPAC chars
Returns a string with newlines at a width specified by 'linesize'
arguments: message
Prints to STDERR (and log) a message, only if verbose is set
arguments: message, []
Writes a message to the log file and STDERR, regardless of --verbose
arguments: url, destination
Download a remote file
arguments: command, [%options]
Execute a command. Options are: * candie BOOL, to tolerate non zero exit * logall BOOL, save to log STDOUT and STDERR
Returns the number of detected cores, default 1
Andrea Telatin <andrea@telatin.com>
This software is Copyright (c) 2019 by Andrea Telatin.
This is free software, licensed under:
The MIT (X11) License
To install FASTX::Reader, copy and paste the appropriate command in to your terminal.
cpanm
cpanm FASTX::Reader
CPAN shell
perl -MCPAN -e shell install FASTX::Reader
For more information on module installation, please visit the detailed CPAN module installation guide.