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SISTR Release v1.1.3 final merge #60

Merged
merged 3 commits into from
Dec 5, 2024
Merged

SISTR Release v1.1.3 final merge #60

merged 3 commits into from
Dec 5, 2024

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kbessonov1984
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@kbessonov1984 kbessonov1984 commented Dec 3, 2024

  • Created small fixes to improve Paratyphi B vs variant Java discrimination by correcting small errors in genome to serovar reference text file (sistr/data/genomes-to-serovar.txt) designations and updates Zenodo remote repo with a new version
  • Explicitly wrote cgMLST top serovar hits dataframe sorting both by distance and matching alleles

…e and length favouring the longest and highest scoring alleles matches. This generated different results on different configuations. Sometimes alleles might have identical bitscores but different alignment length and percent identity
… when %id and %coverage and only single antigen are present, otherwise scored by highest bitscore. The cgMLST hits are sorted explicitly by max matched hashes and min distance to the closest genome. Partially improved Paratyphi B and variant Java discrimination
@kbessonov1984 kbessonov1984 changed the title Release v1.1.3 merge SISTR Release v1.1.3 final merge Dec 3, 2024
@kbessonov1984 kbessonov1984 merged commit 177a6da into master Dec 5, 2024
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