Include SVs into somatic report configuration.

[axelgschwind]

Currently, somatic structural variants are chosen by hand.

Like germline SVs, somatic SVs should be imported into NGSD and the user should be able to select a SV for the somatic report configuration.

[Ott-Alexander]

• [x] Config fields for somatic SV-config - exclude reasons [artefact, unclear effect, other], description, comment, overwrite fields (of germline), rna information [confirmed, not confirmed, RNA data not usable]

• [x] Create tables in NGSD

• [x] improve annotation of SVs:

  • [x] Breakpoint genes split by breakpoint

• [x] add import option for somatic SVs to NGSDAddVariantSomatic

• [x] GSVar: improve SV-Widget for somatic

  • [ ] ~~target region filter auch auf Breakpoint_Genes anwenden (basierend auf Gennamen, automatisch von kleinen Varianten übernehmen)~~
  • [x] The SV type (BND, DUP, DEL, ....), SomaticScore, the 4 Tum_PR/SR_ref/alt, Flags,

• [x] Report: add table to somatic report (see Sorin E-Mail from 14.03.24)

• [x] add Tests:

  • [x] NGSD function
  • [x] somatic report