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we're always passing a fastq #173

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we're always passing a fastq #173

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480ae2c
we're always passing a fastq
macmanes Dec 4, 2015
dd28f26
update to -pairedFastq
macmanes Dec 4, 2015
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1 change: 1 addition & 0 deletions lib/transrate/snap.rb
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Original file line number Diff line number Diff line change
Expand Up @@ -37,6 +37,7 @@ def build_paired_cmd l, r, threads
cmd << " -D 5" # extra edit distance to search. needed for -om
cmd << " -om 5" # Output multiple alignments. extra edit distance
cmd << " -omax 10" # max alignments per pair/read
cmd << " -pairedFastq" # we're always passing a fastq
cmd
end

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