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Forum: Bioinformatics 07-02-2012, 09:32 AM
Replies: 0
Views: 1,257
Posted By claudyhenrix
how to change bowtie2 parameters

I want to make bowtie2 reject reads that are less than 15 bps long. Bowtie was built from source on my computer and I don't know in which of all the files I would have to make the changes, or is it...
Forum: Bioinformatics 06-27-2012, 11:34 AM
Replies: 1
Views: 1,720
Posted By claudyhenrix
Recommended Bowtie2 parameters for chloroplast assembly using unpaired 101 bp reads

Do the default parameters of Bowtie2 (sensitive: `-D 15 -R 2 -L 22 -i S,1,1.15` (default in `--end-to-end` mode)) provide good enough results to publish for assembling Illumina HiSeq unpaired 101 bp...
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