{ bionix }: with bionix; rec { /* Align read against a reference: defaults to bwa-mem */ align = bwa-mem; /* Align reads against a reference using bwa-mem Type: bwa-mem :: {ref :: fasta, bamOutput :: bool, ...} -> {input1, input2} -> bam/sam */ bwa-mem = callBionixE ./bwa-mem.nix; /* Creates an reference index for BWA Type: index :: {...} -> fasta -> BWA index */ index = callBionixE ./bwa-index.nix; }