Hi,
I am using bowtie for colorspace alignment. My data are 35nt reads (36nt if the first T is included). In the bowtie default output file, the decoded sequence space reads has only 33 NT displayed.
my command is:
bowtie -t -q -p 7 -C -n 3 -a --best MyGenomeSeq MyInput.fastq > MyOutput.aln &
Could anyone explain this?
Thanks,
Song Li
I am using bowtie for colorspace alignment. My data are 35nt reads (36nt if the first T is included). In the bowtie default output file, the decoded sequence space reads has only 33 NT displayed.
my command is:
bowtie -t -q -p 7 -C -n 3 -a --best MyGenomeSeq MyInput.fastq > MyOutput.aln &
Could anyone explain this?
Thanks,
Song Li
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