From 867e68554307d45e102ba3267f5f469d02fc6a86 Mon Sep 17 00:00:00 2001 From: l-d-s Date: Tue, 21 May 2019 10:33:13 +1000 Subject: Update README.md --- README.md | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) (limited to 'README.md') diff --git a/README.md b/README.md index ff1245b..8858a25 100644 --- a/README.md +++ b/README.md @@ -26,8 +26,8 @@ BioNix will download or build all of the necessary software and create a soft li Next, check out the code: - The pipeline itself is specified in `examples/call.nix` and `examples/default.nix`. -- The BioNix wrapper for `platypus` is in `tools/platypus-callVariants.nix`. -- The software package for `platypus` can be found in [nixpkgs](https://github.com/NixOS/nixpkgs/blob/master/pkgs/applications/science/biology/platypus/default.nix). +- The BioNix wrapper to run `platypus` is in `tools/platypus-callVariants.nix`. +- The Nix expression for the `platypus` software itself can be found in [nixpkgs](https://github.com/NixOS/nixpkgs/blob/master/pkgs/applications/science/biology/platypus/default.nix). BioNix pipelines can be easily wrapped in shell scripts: see `examples/ex-tnpair/tnpair` for an example script that accepts a reference fasta, along with paired normal and tumor fastq files, and performs alignment, preprocessing, and variant calling with [`strelka`](https://github.com/Illumina/strelka). -- cgit v1.2.3