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vg 1.45.0 - Alpicella
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@adamnovak adamnovak released this 03 Jan 17:12
· 2445 commits to master since this release
v1.45.0
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Download for Linux

Don't forget to mark the static binary executable:

chmod +x vg

Docker Image: quay.io/vgteam/vg:v1.45.0

Buildable Source Tarball: vg-v1.45.0.tar.gz

Includes source for vg and all submodules. Use this instead of Github's "Source Code" downloads; those will not build as they do not include code for bundled dependencies that the vg build process needs.

This release includes:

  • vg clip -d now removes edges not meeting the depth threshold, in addition to nodes
  • vg paths -C reports both undirected (visit any node twice) and directed (visit any node twice in same orientation) cyclicity
  • Macports-based installation instructions have been simplified
  • vg Mac build now works even if g++ --version doesn't actually have the version string on the first line
  • vg no longer supports the "ODGI" format. The implementation that vg used was never compatible with the implementation in the actual odgi tool. If you have graphs in the old vg-odgi format, use vg 1.44.0 to convert them to another format. To exchange data with the odgi tool, use the GFA format.
  • Fix stats -p option
  • vg giraffe --align-from-chains invokes a separate (still experimental) long-read-optimized codepath.
  • vg giraffe option parsing uses a new setup that makes it easier to add and report on options.
  • Giraffe funnel explanations can track correctness and placed-ness along the length of a read.
  • vg mpmap has increased sensitivity for detecting splice junctions
  • vg autoindex can produce graphs (included spliced graphs) from FASTAs without requiring VCFs
  • vg autoindex now splits the indexing for vg mpmap from the indexing for rpvg. The previous behavior can be recapitulated by indicating both workflows: --workflow mpmap --workflow rpvg
  • vg chunk and vg trace can now get haplotypes from an input GBZ file
  • vg chunk can use --no-embedded-haplotypes to ignore haplotypes from a GBZ.

Updated Submodules

The libbdsg and libhandlegraph submodules have been updated.

Assets 4
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