Try arrow

PacificBiosciences · Dec 21, 2016 · 6dd5fd9 · 6dd5fd9
1 parent 791dc55
commit 6dd5fd9
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/falcon_unzip/run_quiver.py b/falcon_unzip/run_quiver.py
@@ -90,7 +90,7 @@ def task_run_quiver(self):
           --minAnchorSize=12 --maxDivergence=30 --concordant --algorithm=blasr\
           --algorithmOptions=--useQuality --maxHits=1 --hitPolicy=random --seed=1\
             {read_bam} {ref_fasta} aln-{ctg_id}.bam
-({variantCaller} -x 5 -X 120 -q 20 -j 24 -r {ref_fasta} aln-{ctg_id}.bam\
+({variantCaller} --algorithm=arrow -x 5 -X 120 -q 20 -j 24 -r {ref_fasta} aln-{ctg_id}.bam\
             -o {cns_fasta} -o {cns_fastq}) || echo quvier failed
 date
 touch {job_done}