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@christianfares christianfares released this 17 Jun 03:41
2.0.0
c2eae51
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Learn about vigilant mode.
  • Added --custom-reference-fasta and --custom-reference-genome options for mity call, mity normalise and mity runall
  • Updated and added new mitomap sources (see mity_report_documentation for more detailed updates). Note that these changes are breaking and affect the behaviour of mity report.
  • Added new option for mity report to additionally output the annotated vcf file as a xlsx file: --output-annotated-vcf.
  • Fixed mity report output file name from prefix.annotated_variants.xlsx -> prefix.mity.report.xlsx.
  • Added and improved documentation including: change_log, custom_report_configs, mity_report_documentation, future_improvements.
  • Added ruff.toml for formatting.
  • Removed custom calculations for ALLELE FREQUENCY MITOMAP which was derived from old mitomap Genbank Frequency. This is replaced with the new Genbank Frequency numbers from updated mitomap. See mitomap sources for more details.
  • Fixed but in mity report when the sheet name is longer that 31 characters.
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