hisat2: init

1 files changed, 18 insertions, 0 deletions

diff --git a/tools/hisat2.nix b/tools/hisat2.nix
new file mode 100644
index 0000000..8cc4ddf
--- /dev/null
+++ b/tools/hisat2.nix
@@ -0,0 +1,18 @@
+{ bionix }:
+
+with bionix;
+
+rec {
+  /* Align read against a reference
+  Type: hisat2-mem :: {ref :: fasta, bamOutput :: bool, ...} -> {input1, input2} -> bam/sam
+  */
+  align = callBionixE ./hisat2-align.nix;
+
+  /* Creates an reference index for HISAT2
+  Type: index :: {...} -> fasta -> HISAT2 index
+  */
+  index = callBionixE ./hisat2-index.nix;
+
+  extractSpliceSites = callBionixE ./hisat2-extractSpliceSites.nix;
+  extractExons = callBionixE ./hisat2-extractExons.nix;
+}