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Optionally output the matching sequences to a separate file #21

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torognes opened this issue Jun 10, 2021 · 2 comments
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Optionally output the matching sequences to a separate file #21

torognes opened this issue Jun 10, 2021 · 2 comments
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enhancement New feature or request

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torognes commented Jun 10, 2021 •
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Optionally, CompAIRR should output the matching sequences to a separate TSV file for any matching pair from set A and set
@torognes torognes added the enhancement New feature or request label Jun 10, 2021
@torognes torognes self-assigned this Jun 10, 2021
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torognes commented Jun 10, 2021 •
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Columns that be should be output:

  • A: repertoire_id
  • A: sequence_id
  • A: duplicate_count
  • A: v_call
  • A: j_call
  • A: junction_aa
  • B: repertoire_id
  • B: sequence_id
  • B: duplicate_count
  • B: v_call
  • B: j_call
  • B: junction_aa

Perhaps these values should be output as well?

  • number of differences?
  • alignment (CIGAR)?

torognes added a commit that referenced this issue Jun 17, 2021
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Optionally output list of matching pairs (#21)
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Option -p FILENAME or --pairs FILENAME can now be specified to list the matching pairs to a file.

It may take a long time if there are many matches.

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