allowed soft-clipping in mapped read cigar string

YeoLab · Apr 25, 2017 · f789997 · f789997
1 parent b644a9e
commit f789997
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/clipper/src/readsToWiggle.pyx b/clipper/src/readsToWiggle.pyx
@@ -130,7 +130,7 @@ def get_full_length_cigar(read):
         value, times = t
 
         #value 3 is splice junction value 2 is deletion in read
-        if value == 3 or value == 2 or value == 1:
+        if value == 3 or value == 2 or value == 1 or value == 4:
             continue
         for x in xrange(times):
             yield value