Commandline Usage

• AlignSets
  • AlignSets muscle
  • AlignSets offset
  • AlignSets table
• AssemblePairs
  • AssemblePairs align
  • AssemblePairs join
  • AssemblePairs reference
• BuildConsensus
• ClusterSets
• CollapseSeq
• ConvertHeaders
  • ConvertHeaders 454
  • ConvertHeaders genbank
  • ConvertHeaders generic
  • ConvertHeaders illumina
  • ConvertHeaders imgt
  • ConvertHeaders sra
• EstimateError
• FilterSeq
  • FilterSeq length
  • FilterSeq maskqual
  • FilterSeq missing
  • FilterSeq quality
  • FilterSeq repeats
  • FilterSeq trimqual
• MaskPrimers
  • MaskPrimers align
  • MaskPrimers score
• PairSeq
• ParseHeaders
  • ParseHeaders add
  • ParseHeaders collapse
  • ParseHeaders copy
  • ParseHeaders delete
  • ParseHeaders expand
  • ParseHeaders rename
  • ParseHeaders table
• ParseLog
• SplitSeq
  • SplitSeq count
  • SplitSeq group
  • SplitSeq sample
  • SplitSeq samplepair
  • SplitSeq sort