Add raw subread/featurecounts fixtures for custom/collectfeaturecounts - #2247
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erikrikarddaniel merged 3 commits intoAug 29, 2026
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Two small, per-sample featureCounts.tsv files in the real subread
output shape (comment line + Geneid/Chr/Start/End/Strand/Length/<bam>
header), for testing the new custom/collectfeaturecounts nf-core/modules
component. Distinct from the existing sample{1,2}.*.featureCounts.tsv
fixtures added for custom/collectstats (nf-core#2210),
which are already-collected/joined tables in a different shape.
Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01UvGYU6kuXJeVv9ffdSzdzH
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Could you update the README? |
Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_01UvGYU6kuXJeVv9ffdSzdzH
The fasta/ and tax/ fixtures added for custom/resolvetaxonomy tests in nf-core#2239 were never added to the Data Description section. Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_01UvGYU6kuXJeVv9ffdSzdzH
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Thanks @leapicard . I took the opportunity to add descriptions to some quite recent other datasets I added. |
leapicard
approved these changes
Aug 29, 2026
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Description
Two small, per-sample
featureCounts.tsvfixtures in the realsubread/featurecountsraw output shape (# Program:featureCountscomment line +Geneid/Chr/Start/End/Strand/Length/<bam>header), each derived from a real run ofsubread/featurecounts's own module test againstgenomics/sarscov2data, with per-sample count values varied.For testing a new
custom/collectfeaturecountsnf-core/modules component (mirrorscustom/collectstats's own test data added in #2210). Deliberately distinct from the existingsample{1,2}.*.featureCounts.tsvfixtures added in #2210, which are already-collected/joined tables (haveaccno/tpmcolumns) rather than raw tool output — the two shapes would otherwise collide in naming intent.Generated by Claude