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@zhengzhenxian zhengzhenxian released this 04 Apr 10:16
· 183 commits to main since this release
v0.1-r11
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Learn about vigilant mode.
  1. Variant calling ~2.5x faster than v0.1-r10 tested with ONT Q20 data, with feature generation in both pileup and full-alignment now implemented in C (co-contributors @cjw85, @ftostevin-ont, @EpiSlim).
  2. Added the lightning-fast longphase as an option for phasing. Enable using longphase with option --longphase_for_phasing. New option is disabled by default to align with the default behavior of the previous versions, but we recommend enable when calling human variants with ≥20x long-reads).
  3. Added --min_coverage and --min_mq options (#83).
  4. Added --min_contig_size option to skip calling variants in short contigs when using genome assembly as input.
  5. Reads haplotagging after phasing before full-alignment calling now integrated into full-alignment calling to avoid generating an intermediate BAM file.
  6. Supported .csi BAM index for large references (#90). For more speedup details, please check Notes on r11.

v0.1-r11 minor 2 patches are included in all installation options

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