DNAA

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Application data

Created by Homer N
Biological application domain(s) Structural variation, SNP discovery, DNA methylation
Principal bioinformatics method(s) Statistics, Sequencing Quality Control, Simulation
Technology ABI SOLiD, Illumina, 454
Maintained? Maybe
Input format(s) SAM, BAM
Licence GPL

Summary: DNAA (DNA Analysis) software for analysis of Next-Generation Sequencing data.

DNAA complements BFAST.

It has a number of utilities, including:

  • Calculate various statistics from alignment files in the SAM format (see SAMtools).
  • Calculate distribution of paired end distances (dbampairedenddist)
  • Assist BFAST with bisulfite methylation analysis (dmethyl/dmethylbaf))
  • Detecting structural variants (dstructure, dtranslocations)
  • Filter BAM files (dbamfilter, dbammetric)
  • Estimate error distributions (dbamerrordist)
  • Create whole-genome simulated sequence data (wgsim)
  • Analyze various possible encoding schemes for ABI SOLiD data.
  • Other utilities in development.

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