Hey all,
In BOWTIE, aligning 75bp reads, setting parameters for only outputting unique reads, works fine (and is damn fast!) - now, I want to output all reads not mapped by using the --unfq paramter. This gives me a FASTQ-file with reads of uneven lengths, skipped lines and general chaos.
Any help is appreciated!
Regards,
JW,
Uni. of Copenhagen
In BOWTIE, aligning 75bp reads, setting parameters for only outputting unique reads, works fine (and is damn fast!) - now, I want to output all reads not mapped by using the --unfq paramter. This gives me a FASTQ-file with reads of uneven lengths, skipped lines and general chaos.
Any help is appreciated!
Regards,
JW,
Uni. of Copenhagen
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