| Age | Commit message (Expand) | Author |
|---|
| 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 |
| 2018-11-01 | samtools-sort: don't sort if already sorted | Justin Bedo |
| 2018-10-29 | Split gridss into constituents | Justin Bedo |
| 2018-10-29 | bwa-mem: BWA output is query name sorted | Justin Bedo |
| 2018-10-29 | init: samtools-markdup | Justin Bedo |
| 2018-10-29 | init: samtools-fixmate | Justin Bedo |
| 2018-10-26 | init: mutect | Justin Bedo |
| 2018-10-26 | init: samtools-dict | Justin Bedo |
| 2018-10-25 | Improve type safety of samtools-merge | Justin Bedo |
| 2018-10-25 | Simplify types for sorting | Justin Bedo |
| 2018-10-24 | Merge branch 'master' of https://github.com/PapenfussLab/bionix | l-d-s |
| 2018-10-24 | Add merge to samtools. | l-d-s |
| 2018-10-24 | Fix platypus bug | Justin Bedo |
| 2018-10-23 | Allow building bwa-mem with one core | Justin Bedo |
| 2018-10-23 | Simplify infercnv-app | Justin Bedo |
| 2018-10-23 | Wrap inferCNV | Justin Bedo |
| 2018-10-08 | Add identity to compression functions | Justin Bedo |
| 2018-10-08 | Fix type in samtools-view | Justin Bedo |
| 2018-10-05 | implement types | Justin Bedo |
| 2018-10-04 | Refactor references | Justin Bedo |
| 2018-10-04 | Refactor to use bionix tree directly | Justin Bedo |
| 2018-09-28 | Add crumble | Justin Bedo |
| 2018-09-28 | Change mosdepth plotting to multisample | Justin Bedo |
| 2018-09-28 | Fix missing index for mosdepth | Justin Bedo |
| 2018-09-27 | Allow flag passing to bwa index | Justin Bedo |
| 2018-09-26 | Missing GRIDSS files | Justin Bedo |
| 2018-09-26 | move bwa index to parameters | Justin Bedo |
| 2018-09-26 | Fix mosdepth | Justin Bedo |
| 2018-09-26 | Fix fastqc | Justin Bedo |
