From c7c2e6ddf7f8e1cf71cfd8363aa130b8e740e0a4 Mon Sep 17 00:00:00 2001 From: clintval Date: Thu, 19 May 2022 13:43:22 -0400 Subject: [PATCH] Document that the XB tag now contains the mapping quality too --- fastmap.c | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/fastmap.c b/fastmap.c index 15f0aa4..be7ba0e 100644 --- a/fastmap.c +++ b/fastmap.c @@ -319,7 +319,7 @@ int main_mem(int argc, char *argv[]) fprintf(stderr, " specify the mean, standard deviation (10%% of the mean if absent), max\n"); fprintf(stderr, " (4 sigma from the mean if absent) and min of the insert size distribution.\n"); fprintf(stderr, " FR orientation only. [inferred]\n"); - fprintf(stderr, " -u output XB instead of XA; XB is XA with the alignment score added.\n"); + fprintf(stderr, " -u output XB instead of XA; XB is XA with the alignment score and mapping quality added.\n"); fprintf(stderr, "\n"); fprintf(stderr, "Note: Please read the man page for detailed description of the command line and options.\n"); fprintf(stderr, "\n");