The setParam command adjusts the stringency of one or more of the assembling parameters for the project. SeqMan NGen will use the default values for any parameter that is not specified within the script.
All of the parameters for setParam are identical to the same parameters described in the assembleTemplate command topic:
delayAlignInserts
gapPenalty
increaseRunGapPen
matchScore
minAlignedLength
minMatchPercent
mismatchPenalty
removeUniqueInserts
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