A community effort to collect a curated set of analysis pipelines built using Nextflow.

nf-core

<https://github.com/nf-core/test-datasets/pull/2075|#2075 Replace example_pe.bam with a GRCh38-aligned NA11995 BAM>
Pull request opened by <https://github.com/jonasscheid|jonasscheid>
Swaps the HLA-only `example_pe.bam` (66 MB, Yara-mapped against OptiType's HLA reference) for `NA11995_GRCh38.bam` (4.7 MB) — the same NA11995/SRR766010 reads from `fastq/`, re-paired and aligned to GRCh38 with `bwa mem`. Unblocks real-run testing for SpecHLA's `ExtractHLAread` path (<https://github.com/nf-core/hlatyping/pull/219|nf-core/hlatyping#219>); OptiType still works (BAM path always re-extracts via `samtools collatefastq` + Yara)
<https://github.com/nf-core/test-datasets|nf-core/test-datasets>

<https://github.com/nf-core/test-datasets/pull/2075|#2075 Replace example_pe.bam with a GRCh38-aligned NA11995 BAM>
Pull request ready for review by <https://github.com/jonasscheid|jonasscheid>
<https://github.com/nf-core/test-datasets|nf-core/test-datasets>

Review on #2075 Replace example_pe.bam with a GRCh38-aligned NA11995 BAM
Review approved by <https://github.com/piplus2|piplus2> on <https://github.com/jonasscheid|jonasscheid's> pull request
LGTM!
<https://github.com/nf-core/test-datasets|nf-core/test-datasets>

<https://github.com/nf-core/test-datasets/pull/2075|#2075 Replace example_pe.bam with a GRCh38-aligned NA11995 BAM>
Pull request merged by <https://github.com/jonasscheid|jonasscheid>
<https://github.com/nf-core/test-datasets|nf-core/test-datasets>