BALSAMIC

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chore: update qc thresholds

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## Description [PR description] #### Added - [Description] #### Changed - [Description] #### Fixed - [Description] #### Removed - [Description] ## Documentation - [ ] N/A - [ ] Updated...

mathiasbio

[Maintenance] Standardise bait set and capture kit terminology

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### Task In this internal revision an effort has been made to standardise terminology for panel, bait-set and capture kit. To choose one name when possible to avoid confusion. issue:...

mathiasbio

feat: change submit method

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## Description [PR description] #### Added - [Description] #### Changed - [Description] #### Fixed - [Description] #### Removed - [Description] ## Documentation - [ ] N/A - [ ] Updated...

mathiasbio

### Task Currently in Balsamic we are reporting the panel version used in the analysis in the delivery_report, however sometimes a case can be constituted by samples prepped with different...

mathiasbio

feat: Update vep version

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## Description Closes https://github.com/Clinical-Genomics/BALSAMIC/issues/1556 #### Changed - Update to latest VEP version - Update to latest CAD version #### Fixed - Fixed varcall_py27 container ## Documentation - [ ] N/A...

fevac

### Task We will now switch to a new version of the GMS lymphoid panel (version 7.4) and from [the validation](https://github.com/Clinical-Genomics/validations/pull/309) it is evident that the GC dropout is higher...

moahaegglund

### Need As a clinician interpreting lymphomas and chronic lymphocytic leukemia I would like to know the mutation status of IGHV (immunoglobulin heavy chain variable region). This analysis will be...

mathiasbio

### Need As a clinician analysing cases run with GMS lymphoid v 7.4 in BALSAMIC I would like to have less noisy and more likely true CNV calls. A new...

moahaegglund

feat: add somatic loqusdb snv for panel arguments and filters

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## Description [PR description] #### Added - [Description] #### Changed - [Description] #### Fixed - [Description] #### Removed - [Description] ## Documentation - [ ] N/A - [ ] Updated...

mathiasbio

### Need As a clinician interpreting variants in Scout, I want to be able to see how many times the variant I am interpreting has been seen before so that...

mathiasbio