From 4b946909b985edb374308529d6465ac5760a526a Mon Sep 17 00:00:00 2001 From: Haifeng Chen Date: Sun, 22 Nov 2015 15:42:52 -0800 Subject: [PATCH] Update FAQ.md --- FAQ.md | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/FAQ.md b/FAQ.md index 9046267..1957cdd 100644 --- a/FAQ.md +++ b/FAQ.md @@ -1,6 +1,6 @@ ## Frequently Asked Questions ## -1. When does WALT get much lower mapping rate (mapping effiency) compared to other bisulfite mappers? +1. Why does WALT get much lower mapping rate (mapping effiency) compared to other bisulfite mappers? By default, WALT ignores reads shorter than 39. If you get lower mapping rate, please go to mapstats file and check the percentage of reads that are shorter than 39. If a large portion of reads are shorter than 39, I suggest you use WALT seed pattern 7.