| Age | Commit message (Expand) | Author |
|---|
| 2019-02-11 | snpeff: parameterise heap size and default to 31g | Justin Bedo |
| 2019-01-17 | strelka-callSomatic: remove superfluous gzip dependency | Justin Bedo |
| 2019-01-17 | compression: refactor compression framework | Justin Bedo |
| 2019-01-17 | strelka: refactor vcf extraction | Justin Bedo |
| 2019-01-16 | strelka: split out vcfs | Justin Bedo |
| 2019-01-15 | strelka: add germline calling | Justin Bedo |
| 2019-01-14 | cnvkit: fix annotation bug | Justin Bedo |
| 2019-01-13 | snpeff-dbnsfp: fix buildInputs | Justin Bedo |
| 2019-01-13 | snpeff: fix dbnsfp | Justin Bedo |
| 2019-01-11 | cnvkit: use nixpkgs python modules | Justin Bedo |
| 2019-01-11 | cnvkit: bugfix in empty normals | Justin Bedo |
| 2019-01-10 | facets: init | Justin Bedo |
| 2019-01-10 | cnvkit: init | Justin Bedo |
| 2019-01-10 | mutect: remove superfluous import | Justin Bedo |
| 2019-01-10 | refactor missed stages | Justin Bedo |
| 2019-01-09 | large refactor | Justin Bedo |
| 2019-01-08 | snpeff: init | Justin Bedo |
| 2019-01-03 | samtools-fixmate: default MS tag annotation to true | Justin Bedo |
| 2018-12-19 | gridss: simplify preprocessing and rewrite using new pipe function | Justin Bedo |
| 2018-12-18 | qsub: refactor overriding | Justin Bedo |
| 2018-12-12 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-12-12 | gridss: call identifyVariants through bionix tree | Justin Bedo |
| 2018-12-12 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-12-12 | gridss: refactor identify & annotate variants | Justin Bedo |
| 2018-12-11 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-12-11 | samtools-sort: fix reversed link for identity sort | Justin Bedo |
| 2018-12-11 | gridss: fix softClipsToSplitReads after assembly | Justin Bedo |
| 2018-12-10 | gridss: add java heapSize arguments. | l-d-s |
| 2018-12-10 | bowtie: init | Justin Bedo |
| 2018-12-10 | gridss: fix tmpdir bug. | l-d-s |
| 2018-12-06 | gridss: remove redundant collectGridssMetrics | l-d-s |
| 2018-11-29 | Correct argument for gridss option file | l-d-s |
| 2018-11-29 | gridss: fix for nix installations outside of /nix | Justin Bedo |
| 2018-11-26 | Also need config for 'assemble' step. | l-d-s |
| 2018-11-22 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-11-22 | gridss: restructure gridss pipeline | Justin Bedo |
| 2018-11-22 | samtools-sort: handle missing 'none' sorting case | Justin Bedo |
| 2018-11-22 | gridss: fix configure file optional string error | Justin Bedo |
| 2018-11-15 | Fix up gridss config file. | l-d-s |
| 2018-11-15 | gridss.softClipsToSplitReads: sort -> sorting | l-d-s |
| 2018-11-15 | Syntax. | l-d-s |
| 2018-11-15 | Need to test config != null | l-d-s |
| 2018-11-15 | gridss.softClipsToSplitReads: sort ordering is not preserved | Justin Bedo |
| 2018-11-13 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-11-12 | Attempt to integrate config file into GRIDSS stage | l-d-s |
| 2018-11-12 | Function to great ini-style gridss config file. | l-d-s |
| 2018-11-07 | Fix to gridss. | l-d-s |
| 2018-11-07 | Add bwa to softClipsToSplitReads | l-d-s |
| 2018-11-02 | Allow bwa-mem to take gzipped fastq inputs | Justin Bedo |
| 2018-11-02 | kallisto: init | Justin Bedo |
