Hi
I want to map with bowtie, 2 misstmaches per read and descarding reads with more than 1 reportable alignment:
bowtie -a --best --strata -m 1 -v 2 -S -l 36 ~/indexes/mm9 file.fastq > file.sam
is it correct? and how about the options? are they resonable for an alignment??
I want to map with bowtie, 2 misstmaches per read and descarding reads with more than 1 reportable alignment:
bowtie -a --best --strata -m 1 -v 2 -S -l 36 ~/indexes/mm9 file.fastq > file.sam
is it correct? and how about the options? are they resonable for an alignment??
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