Imported Upstream version 0.1.8

[samtools.git] / bam_maqcns.h

diff --git a/bam_maqcns.h b/bam_maqcns.h
index fa5489d13caad7c5c20489091302bfb5b2a5799d..6cc5355fc2db2b1b19e6a3d2d330306a240fa15a 100644 (file)
--- a/bam_maqcns.h
+++ b/bam_maqcns.h
@@ -16,8 +16,9 @@ typedef struct {
 } bam_maqcns_t;
 
 typedef struct {
-       int q_indel;
-       float r_indel;
+       int q_indel; // indel sequencing error, phred scaled
+       float r_indel; // indel prior
+       float r_snp; // snp prior
        // hidden parameters, unchangeable from command line
        int mm_penalty, indel_err, ambi_thres;
 } bam_maqindel_opt_t;