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| author | Justin Bedo <cu@cua0.org> | 2019-04-12 09:58:39 +1000 |
|---|---|---|
| committer | Justin Bedo <cu@cua0.org> | 2019-04-12 09:58:39 +1000 |
| commit | 5a82b7a2361097e84d3a916f87c0ff6252d9167c (patch) | |
| tree | 915eb73dd539ee8854400b18ba1b2dee450705ce /test-tnpair.nix | |
| parent | 001e834a4b8e660be8797690a2b0eb418b01fbbb (diff) | |
minimap2: init
Diffstat (limited to 'test-tnpair.nix')
| -rw-r--r-- | test-tnpair.nix | 1 |
1 files changed, 1 insertions, 0 deletions
diff --git a/test-tnpair.nix b/test-tnpair.nix index c88b68a..4a3a59e 100644 --- a/test-tnpair.nix +++ b/test-tnpair.nix @@ -49,6 +49,7 @@ let (ln (strelka.snvs tnpairResult.variants) "strelka.snvs.vcf") (ln (strelka.variants tnpairResult.glvariants) "strelka.gl.vcf") (ln (bowtie.align {inherit ref;} tnpair.normal.files) "alignments/bowtie-normal.bam") + (ln (minimap2.align {inherit ref; preset = "sr"; } tnpair.normal.files) "alignments/minimap2-normal.bam") (ln (gridss.callVariants {} (with tnpairResult.alignments; [normal tumour])) "gridss") (ln (gridss.call (with tnpairResult.alignments; [normal tumour])) "gridss2") (ln (gridss.callAndAssemble (with tnpairResult.alignments; [normal tumour])) "gridss3") |