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2024_06
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@marc-sturm marc-sturm released this 25 Jun 12:05
· 367 commits to master since this release
2024_06
2757273

June 2024 release:

  • new tools: NGSDExportIgvGeneTrack
  • BamFilter: added parameter for maximum insert size
  • NGSDAddVariantsGermline: now imports REs as well
  • NGSDExportSamples: new paramters -only_with_small_variants and -add_lab_columns.
  • SampleGender: new parameter -include_single_end_reads for long-read data.
  • SampleSimilarity: new parameter -include_single_end_reads for long-read data.
  • SampleSimilarity: new parameter -roi_hg38_wes_wgs to make WES, WGS and lrGS results more comparable.
  • UpdHunter: new parameter -out_informative to write out a IGV track with informative variants.
  • VcfCalculatePRS: new parameter -min_depth and support for variants that are to be imputed independent of the sample genotype.
  • NGSD:
    • added tables for somatic SVs: somatic_somatic_sv_callset, somatic_sv_deletion, somatic_sv_duplication, somatic_sv_insertion, somatic_sv_inversion, somatic_sv_translocation, somatic_report_configuration_sv
    • added tables for repeat expansions: repeat_expansion, repeat_expansion_genotype, re_callset, report_configuration_re
    • processed_sample table: added boolean scheduled_for_resequencing to flag samples for resequencing to increase depth/coverage

Note: Please do not use the auto-generated 'Source code' packages - they will not work!

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