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ggCaller v1.3.0
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@samhorsfield96 samhorsfield96 released this 15 Dec 14:52
v1.3.0
67e5e46

Major updates to v1.2.4:

  • Significant upgrades to memory and time efficiency.
  • Replaces seqan3 with sdsl v3 for fm-indexing.
  • Implements panaroo for gene-call correction and pangenome analysis.
  • Adds cluster-based annotation using diamond and hmmer.
  • Adds GFF, gene presence/absence and structural variant presence/absence outputs.
  • Adds gene frequency and rarefaction curve plots.
  • Implements core and pangenome alignment using mafft.
  • Adds pangenome reference generation.
  • Implements neighbouring joining tree generation using rapidnj.
  • Implements within-cluster SNP-calling using SNP-sites.
  • Implements graph-querying.
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