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Support gVCF output and joint germline calling for Parabricks HaplotypeCaller
enhancementNew feature or requestNew feature or requestStatus: Open.#2261 In nf-core/sarek;Sentieon doesn't work when using Seqera Platform and a license server
bugSomething isn't workingSomething isn't workingStatus: Open.#2256 In nf-core/sarek;bwa-mem2.avx2 crashes (SIGSEGV) on Intel Core Ultra (Arrow Lake) under WSL2 — workaround: force SSE4.2 binary
bugSomething isn't workingSomething isn't workingStatus: Open.#2254 In nf-core/sarek;Somatic tumor-normal run with indexcov fails at SAMTOOLS_REINDEX_BAM due to tuple mismatch
bugSomething isn't workingSomething isn't workingStatus: Open.#2251 In nf-core/sarek;Add GATK like filtering to Parabricks Haplotypecaller path
enhancementNew feature or requestNew feature or requestStatus: Open.#2250 In nf-core/sarek;- Status: Open.#2231 In nf-core/sarek;
- Status: Open.#2230 In nf-core/sarek;
Reuse of intervals-files
enhancementNew feature or requestNew feature or requestStatus: Open.#2226 In nf-core/sarek;- Status: Open.#2224 In nf-core/sarek;
- Status: Open.#2223 In nf-core/sarek;
- Status: Open.#2222 In nf-core/sarek;
- Status: Open.#2215 In nf-core/sarek;