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@tiagofilipe12 tiagofilipe12 released this 25 Sep 12:58
· 58 commits to master since this release
1.6.0
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Learn about vigilant mode.

Version 1.6.0

Back end

  • Added code that allows to save a list of all the accession numbers to a file,
    so that future changes to the database can be easily documented.
  • Added black list for accession numbers that are reported to be misplaced as
    plasmids in refseq database.
  • Update database to NCBI refseq 091418.
  • Added first implementation to parse result from plasmidfinder new database.

Front end

Database queries

  • Search for accession numbers now accept accession without version
    (e.g NC_011413).

Import results

  • Import from file and requests now have an option to submit and filter
    directly.
  • Import from file now has option that allows the user to select the sample to
    display.

Performance

  • Performance of the page was significantly improved with the fix of issue #57.
  • Welcome modal was temporarily hidden.
  • Refactored defaultZooming function, now showing only the final zoom.

Other changes

  • Added default behavior for close buttons in modals for imports.
  • Added small information messages to loading.
  • Shift key drag selections now accept multiple selected areas and drag of
    multiple nodes.
  • Improved modals text and several formatting options were changed throughout
    modals.
  • Implemented highlight and filter for all node selections (taxa, resistances,
    plasmid families, virulence and combined selections).
  • Added faq on how to report sequences that aren't plasmids.
  • Removed histogram from length plot.
  • Added new button that allow users to more easily report a sequence, by using
    github api for pre-filled issues.

Bug fixes

  • Fixed minor issues after filtering datasets for link selections and for shift
    selections.
  • Fixed bug with when file is imported preventing selections of taxa,
    resistance, plasmidfinder, virulence and so on.
  • Fixed parsing of resistance genes that contained ' in their gene names

This release also adds a file with all the entries that were removed from NCBI RefSeq database for the pATLAS database (by the curation methods used) - available in removed_entries_stats.txt.

Assets 4
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