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odgi 0.6.1 - Froggi

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@AndreaGuarracino AndreaGuarracino released this 04 Sep 11:04
· 832 commits to master since this release
v0.6.1
b861f09

Buildable Source Tarball: odgi-v0.6.1.tar.gz

This release includes:

  • new command:

    • odgi tips: identifying breakpoint positions relative to given query (reference) path(s) of all the tips in the graph or of tips of the given path(s);

  • commands support both GFA and ODGI formats as input, automatically managing the GFA to ODGI conversion;

  • an important bug has been fixed, which was preventing the use of graphs obtained with other tools or whose node IDs did not start from 1;

  • fixed a bug in odgi viz which resulted in hanging when applied on large pangenome graphs

  • fixed a bug in odgi extract which resulted in extracting not requested path ranges;

  • optimizations in odgi build and extract;

  • bug fixes and improvements in odgi untangle:

    • now it scales to whole chromosomes;
    • it can emit self-depth information;
    • it supports output in PAF format;

  • odgi viz supports colorbrewer palettes to display coverage information;

  • odgi stats can emit output in YAML format;

  • odgi paths can emit 'chr', 'start', 'end' information;

  • odgi viz, depth, degree, and stats can work with not optimized, but compacted graphs;

  • code cleaning;

  • improved command overview and documentation.

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