chore: release 0.15.0

[github-actions[bot]]

:robot: I have created a release *beep* *boop*

0.15.0 (2024-10-07)

Features

• adapt multiqc dna to new mmultiqc version (a46dfb7)
• add a rule which adds the FP_FLAG to vcf header (246f76a)
• add fp-flag column to html report (de38e72)
• add support for changing html report main table (954b90a)
• added cnv caller jumble (13918e2)
• added jumble reference to pipeline (4115c0c)
• added jumble to html report (a40021d)
• added jumble to html report (28a5403)
• added matck_cutoff to config (6405f2c)
• added new jumble PoN to reference files and configs (a986e9c)
• AF rna fusion filter possibility (d46e228)
• change calling model (36dd6aa)
• change max size for FP to 15M baser (0c10799)
• flag FP cnvkit dels and amps based on gatkcnv data (6ddbd02)
• make max size of cnv configurable (5fa5908)
• make sample_mixup_configurable (a0fdd26)
• make sample-mixup configurable (c6fbf03)
• rm CDH1 from reporting of cnv deletions (32cd1f5)
• rm noisy MUC6 from cnv VAF plot (a15663c)
• stricter BAF and cn criterias for chr aberations (9600785)
• update qc module to v0.5.0 to get correct samtools stats without bed file (71a3c0c)
• updated ENC hotspot files (3354710)
• updated multiqc for version info (71e8c8b)

Bug Fixes

• add '-' to FP-flag where missing (6e478f2)
• add FP_FLAG in header of all cnv vcf files (adeab23)
• add missing python module (8566c04)
• bu (ff962a4)
• bugfix (efa90d3)
• bugfix of version crash when pipeline runs over several days (2407c7e)
• bugfixes and improvements (aa84845)
• correct git version (7bd5582)
• correct input to html report (309667a)
• correct output variable (8b5c13f)
• correct reference version (8adec28)
• correct style of table header (0edd510)
• correct style of table header (62cd31c)
• correct test output file name (a811096)
• corrected cytoband config parameter (94678e6)
• corrected git version (e6c8da1)
• count files in correct folder (0c700a9)
• do not use ? in flag (994de7b)
• file list bugfix (d8cffa4)
• final fixes (a75a249)
• flag all variants with - (220324e)
• fp-tag PR mismatch (0f106d1)
• FusionCatcher liftover fail crashes report (99a9e34)
• handle missing ID-SNPs (a247ceb)
• ignore version files (d3d0e42)
• index vcf in for pysam (8735f9d)
• jumble pon override (c261b88)
• multiqc report adjustments (e05c06c)
• pysam bug (1927d0a)
• pysam error (c4331f0)
• ref files and configurable AF filter (dbf208f)
• remove duplicate input (206715a)
• rm insert size from rna multiqd (bdeebd9)
• small changes (984db35)
• solving the FP-flag bug (2048307)
• update annotation module (04b5232)
• update cnv_html_report rule (8abad6a)
• update cnvkit rule in Snakemake to new cnv_sv module (74a86ae)
• Update config.yaml (befb670)
• update hydra min version (b924f43)
• Update output_reference_files.yaml (b2e8c6e)
• Update resources.yaml (62e766d)
• update rna multiqc report for new version of multiqc (991f187)
• Update workflow/scripts/sample_mixup_check.py (c121a4b)
• Update workflow/scripts/sample_mixup_check.py (3ab78f3)
• use samtools stats instead (535d53c)
• wrong fp thresholds (c223d50)

Documentation

• corrected purecn documentation (8a4ed41)

• sample_mixup (9527682)

This PR was generated with Release Please. See documentation.

[github-actions[bot]]

:robot: Release is at https://github.com/genomic-medicine-sweden/Twist_Solid/releases/tag/v0.15.0 :sunflower: