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Releases: pangenome/pggb

v0.7.2

23 Oct 19:48
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v0.7.1

22 Oct 13:37
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v0.7.0

16 Oct 14:22
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Full Changelog: v0.6.0...v0.7.0

v0.6.0

08 Apr 01:53
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Full Changelog: v0.5.4...v0.6.0

pggb 0.5.4 - Fatica

24 Jun 18:44
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The main power-ups in this version are in smoothxg:

  • the partial order alignment (POA) is executed on unique sequences by duplicating the POA blocks before their alignment, strongly improving the performance;
  • final graphs no longer contain uncovered edges, leading to a bit simpler graph topologies.

Moreover, we update vcfwave in order to correctly manage inversions in the VCF file normalization.

Updating pggb's components, we fixed several bugs and now the log files will be a bit less verbose (in order to avoid gigabyte-scale logs for long runs).

This introduces:

pggb 0.5.3 - Eseguito

13 Jan 20:30
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pggb 0.5.2 - Ciclico

18 Dec 05:30
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pggb 0.5.1 - Speranza

08 Nov 16:18
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This introduces:

  • gcc-11 for building the tools in the Docker/Singularity image #240 by @ekg
  • a heavily reworked pggb script to improve its maintainability, with minor bug and typos fixes, and improvement in the LOG/YAML outputs #242 by @AndreaGuarracino
  • the partition-before-pggb script to perform sequence partitioning before pggb #243 by @AndreaGuarracino
  • update for seqwish and its compilation to improve its portability #244 by @AndreaGuarracino
  • optional (skippable) graph normalization step #246 by @AndreaGuarracino

pggb 0.5.0 - Bidirezionale

29 Oct 17:19
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The main change is the introduction of the bidirectional wfλ in wfmash, which allows a full exploration of the high-order alignment matrix without blowing up with the memory. This leads to more and better anchors that tend to simplify the alignments during the patching phase, therefore even improving the runtime for the whole pggb run.

This introduces:

Shareable

01 Aug 15:39
@ekg ekg
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Point release with updates to wfmash and a change to the segment length default (now 5k).