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Closed
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Opened May 31, 2017 by Shaman Narayanasamy@shaman.narayanasamy
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Multi sample analysis

We would need:

  1. A means of providing multiple paired end sequences using:
  • direct input to the command line
  • a list of samples with their relevant paths (for very large studies)
  1. After sample-wise analyses, "representative genomes" can be selected using dRep (http://biorxiv.org/content/early/2017/02/13/108142)

  2. Reads from each sample should be remapped to the "representative genomes" generated by dRep

  3. Other possible enhancements in this regard:

  • Choice for a combined assembly (i.e. pooing reads from multiple samples). This strategy might work well for smaller number of samples, technical replicates, analytical replicates and/or highly similar samples

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Reference: IMP/IMP#100