#2065 Add orfcountmatrix test fixtures Pull request opened by pinin4fjords on <!date^1779274263^{date_short}|2026-05-20T10:51:03Z> Summary Adds hand-crafted synthetic fixtures for the upcoming

custom/orfcountmatrix

module (PR pending against nf-core/modules). The module pivots per-sample ORF P-site count TSVs into a single ORF x sample matrix, zero-filled for ORFs absent from a sample. The fixtures here are small enough to read at a glance and exercise every code path: • ORFs present in both samples (intersection). • ORFs present in only one of the two samples (the other column should be zero-filled). • ORFs present in the catalogue but absent from every sample (should appear as a row of zeros). No real Ribo-seq data is needed - the module is a deterministic pivot of integers, not a biology tool. Files added Under `data/genomics/homo_sapiens/riboseq_expression/orfcountmatrix/`: •

orf_catalogue.bed12

(1.1 KB) - 15-ORF BED12. Column 4 is the ORF id; this defines row order and membership of the output matrix. •

samples/sample1.orf_psite_counts.tsv

(249 B) - 8-row count TSV for sample1 (catalogue ORFs 1-8). •

samples/sample2.orf_psite_counts.tsv

(250 B) - 8-row count TSV for sample2 (catalogue ORFs 1-3 + 9-13). •

README.md

- derivation + coverage matrix. Top-level

README.md

updated to list the new

orfcountmatrix/

directory under

genomics > homo_sapiens > riboseq_expression

, alphabetically between

aligned_reads

and

plastid

. Total: ~1.6 KB across 3 data files. Test plan • Paired

custom/orfcountmatrix

PR uses these fixtures via

<http://raw.githubusercontent.com/pinin4fjords/test-datasets/add-orfcountmatrix-test-data/|raw.githubusercontent.com/pinin4fjords/test-datasets/add-orfcountmatrix-test-data/>...

. • After merge, flip the URLs in the module PR to

nf-core/test-datasets/modules

. nf-core/test-datasets