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MDU-PHL / ngmaster

In silico multi-antigen sequence typing for Neisseria gonorrhoeae (NG-MAST)
GNU General Public License v3.0
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Major update #35

Closed stroehleina closed 2 years ago

stroehleina commented 2 years ago

This update (version 0.5.8 to 1.0.0) implements a number of major changes:

  1. isPcr has been replaced by mlst with a custom allele database
  2. ng-mast.net is no longer online or maintained, so this version has been migrated to use the pubMLST database instead.
  3. Updating of the database is done via pubMLSTs API, replacing the need for web-scraping.
  4. NG-STAR is now integrated into ngmaster. NG-STAR is an AMR typing scheme for N. gonorrhoeae, using seven resistance alleles. --comments function is also implemented which allows to download free-text fields from pubMLST for each allele.
  5. Code has been refactored