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2022-10-03.build6384
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@azat-badretdin azat-badretdin released this 05 Oct 20:41
· 92 commits to master since this release
2022-10-03.build6384
8bb5412

This release is based on PGAP-6.3. It includes the following features and bug fixes:

  • Added more stringent filtering of low coverage and complexity protein alignments, resulting in better annotation of long protein models
  • Incorporated CheckM (Parks, Donovan H et al. Genome research vol. 25,7 (2015): 1043-55) for calculating the completeness and contamination of the assembly based on the presence/absence of lineage-specific markers in the set of PGAP-predicted models
  • Added import traceback #224
  • Bug fix: switched to newer docker hub repository version v2
  • Bug fix: better handling of the "isolate" FASTA modifier.

Third Party Software Versions Used

No changes since the previous release.

  • tRNAScan-SE v.2.0.9
  • hmmer v.3.1b2
  • CRISPR v.1.02
  • AntiFam v.3.0
  • Rfam v.14.4
  • GeneMarkS-2 v.1.14_1.25
  • CheckM v.1.2.1
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