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Release v1.5.0

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@DonFreed DonFreed released this 05 Jan 23:25
· 147 commits to main since this release
v1.5.0
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Learn about vigilant mode.

General updates

  • Use exec instead of the shell to run commands
  • Update the bcftools dependency of most pipelines to v1.22, which allows for simultaneous vcf generation and indexing.
  • Update the packaging version.

Pangenome

  • Introduce a new pipeline, sentieon-pangenome for accelerated alignment to the pangenome graph. This pipeline replaces the earlier pangenome pipeline with vg giraffe alignment.

DNAscope LongRead

  • Updates to vcf_mod.py to fix the RPA annotation.
  • Add -L to minimap2 commands to handle alignments with very long CIGAR strings.

DNAscope Hybrid

  • With --rgsm, completely replace readgroups during variant calling.
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