updated fastp args

phac-nml · Dec 11, 2023 · dfb604b · dfb604b
1 parent d7fbcfb
commit dfb604b
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -191,8 +191,8 @@ params {
         cut_tail_mean_quality = 15
         cut_tail_window_size = 4 // default is 4
         complexity_threshold = 20 // FastP default is 30 not 20
-        qualified_quality_phred = 10 // min quality for a read to contain
-        unqualified_percent_limit = 5 // if the minimum quality of a read is below 10 that read is discarded
+        qualified_quality_phred = 15 // min quality for a read to contain
+        unqualified_percent_limit = 25 // if the minimum quality of a read is below 10 that read is discarded
         polyg_min_len = 10
         polyx_min_len = 10
         illumina_length_min = 35