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-OMICs variants, searchable SV genes, echtvar fields parsing and more
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@northwestwitch northwestwitch released this 22 Aug 08:28
v4.86
8fdf860
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GPG key ID: B5690EEEBB952194
Learn about vigilant mode.

[4.86]

Added

  • Display samples' name (tooltip) and affected status directly on caseS page
  • Search SVs across all cases, in given genes
  • CLINVAR_API_URL param can be specified in app settings to override the URL used to send ClinVar submissions to. Intended for testing.
  • Support for loading and storing OMICS data
  • Parse DROP Fraser and Outrider TSVs
  • Display omics variants - wts outliers (Fraser, Outrider)
  • Parse GNOMAD gnomad_af and gnomad_popmax_af keys from variants annotated with echtvar
  • Make removed panel optionally visible to non-admin or non maintainers
  • Parse CoLoRSdb frequencies annotated in the variant INFO field with the colorsdb_af key
  • Download -omics variants using the Filter and export button
  • Clickable COSMIC links on IGV tracks
  • Possibility to un-audit previously audited filters
  • Reverted table style and removed font awesome style from IGV template
  • Case status tags displayed on dashboard case overview

Changed

  • Updated igv.js to v3.0.1
  • Alphabetically sort IGV track available for custom selection
  • Updated wokeignore to avoid unfixable warning
  • Update Chart.js to v4.4.3
  • Use tornado library version >= 6.4.1
  • Fewer variants in the MEI demo file
  • Switch to FontAwesome v.6 instead of using icons v.5 + kit with icons v.6
  • Show time (hours and minutes) additionally to date on comments and activity panel

Fixed

  • Only add expected caller keys to variant (FOUND_IN or SVDB_ORIGIN)
  • Splice junction merged track height offset in IGV.js
  • Splice junction initiation crash with empty variant obj
  • Splice junction variant routing for cases with WTS but without outlier data
  • Variant links to ExAC, now pointing to gnomAD, since the ExAC browser is no longer available
  • Style of HPO terms assigned to a case, now one phenotype per line
  • RNA sashimi view rendering should work also if the gene track is user disabled
  • Respect IGV tracks chosen by user in variant IGV settings
Assets 2
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