Select fastq sequences in a file
This script selects fastq sequences in a file according to names given in a name file. Given a FASTQ file (and possibly a FASTQ quality file) and a file with names of reads, select the sequences from the input FASTQ (and quality file) and writes them to an output FASTQ.
If fastq quality file is present (same basename, but with .qual appended), then also selects sequences from there.
Please check out the documentation below for more detailed information.
fastqselect <options>
-infile
name filename containing all fastq sequences
-name
name filename containing all names of sequences to select
-outfile name
filename where to write selcted sequences to
A more extensive documentation is provided in the mira-doc package and can be found at /usr/share/doc/mira-assembler/DefinitiveGuideToMIRA.html.
You can also subscribe one of the MIRA mailing lists at
http://www.chevreux.org/mira_mailinglists.html
After subscribing, mail general questions to the MIRA talk mailing list:
To report bugs or ask for features, please use the new ticketing system at:
http://sourceforge.net/apps/trac/mira-assembler/
The author of the mira code is Bastien Chevreux <[email protected]>
This manual page was written by Andreas Tille <[email protected]> but can be freely used for any other distribution.