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Add soapsnp calibration test data for angsd/dosaf module - #2183

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ASendellPrice merged 1 commit into
nf-core:modulesfrom
ASendellPrice:angsd_dosaf
Jul 29, 2026
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Add soapsnp calibration test data for angsd/dosaf module#2183
ASendellPrice merged 1 commit into
nf-core:modulesfrom
ASendellPrice:angsd_dosaf

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Description

Adds an additional test dataset required for the angsd/dosaf module (site allele frequency likelihood estimation).

This dataset consists of soapSNP calibration files produced by the upstream angsd/soapsnpcalibration process, needed to test angsd/dosaf when run with -GL 3 (soapSNP genotype likelihood model), which requires a calibration directory to be passed via -tmpdir.

The calibration directory contains two file types per test sample:

  • *.counts*: per-position base/allele counts
  • *.qual*: recalibrated quality score information

The calibration directory has been added to data/delete_me/angsd as I cannot identify a more suitable location. If there is please let me know.

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@ASendellPrice ASendellPrice self-assigned this Jul 26, 2026

@erikrikarddaniel erikrikarddaniel left a comment

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@ASendellPrice
ASendellPrice merged commit 8fcf53b into nf-core:modules Jul 29, 2026
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2 participants