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Support for CRAM output. #31

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charles-plessy opened this issue Dec 19, 2024 · 0 comments
Open

Support for CRAM output. #31

charles-plessy opened this issue Dec 19, 2024 · 0 comments
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enhancement New feature or request
Milestone
2.1.0

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@charles-plessy
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Description of feature

CRAM files can be considerably smaller than MAF files. The roadmap would be:

  • Test that target genome is bgzipped and exit with error if it is not.
  • Convert from MAF to SAM with last/mafconvert.
  • Convert from SAM to CRAM with samtools/view.
@charles-plessy charles-plessy added the enhancement New feature or request label Dec 19, 2024
@charles-plessy charles-plessy added this to the 2.0.0 milestone Dec 19, 2024
charles-plessy pushed a commit that referenced this issue Jan 21, 2025
@U13bs1125
Implemented the issue: lastal params
34266b3 
close #31
@charles-plessy charles-plessy modified the milestones: 2.0.0, 2.1.0 Jan 23, 2025
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enhancement New feature or request
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2.1.0
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