Package Bio :: Package Sequencing :: Package Applications
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Package Applications

source code

Main entry point for application command line wrappers related to sequencing.

Submodules [hide private]

Classes [hide private]
  BwaIndexCommandline
Command line wrapper for Burrows Wheeler Aligner (BWA) index.
  BwaAlignCommandline
Command line wrapper for Burrows Wheeler Aligner (BWA) aln.
  BwaSamseCommandline
Command line wrapper for Burrows Wheeler Aligner (BWA) samse.
  BwaSampeCommandline
Command line wrapper for Burrows Wheeler Aligner (BWA) sampe.
  BwaBwaswCommandline
Command line wrapper for Burrows Wheeler Aligner (BWA) bwasw.
  SamtoolsViewCommandline
Command line wrapper for samtools view.
  SamtoolsCalmdCommandline
Command line wrapper for samtools calmd.
  SamtoolsCatCommandline
Command line wrapper for samtools cat.
  SamtoolsFaidxCommandline
Command line wrapper for samtools faidx.
  SamtoolsFixmateCommandline
Command line wrapper for samtools fixmate.
  SamtoolsIdxstatsCommandline
Command line wrapper for samtools idxstats.
  SamtoolsIndexCommandline
Command line wrapper for samtools index.
  SamtoolsMergeCommandline
Command line wrapper for samtools merge.
  SamtoolsMpileupCommandline
Command line wrapper for samtools mpileup.
  SamtoolsPhaseCommandline
Command line wrapper for samtools phase.
  SamtoolsReheaderCommandline
Command line wrapper for samtools reheader.
  SamtoolsRmdupCommandline
Command line wrapper for samtools rmdup.
  SamtoolsSortCommandline
Command line wrapper for samtools sort.
  SamtoolsTargetcutCommandline
Command line wrapper for samtools targetcut.
Variables [hide private]
  __package__ = 'Bio.Sequencing.Applications'