Update pipeline.yml

cribbslab · Oct 15, 2023 · ce8701e · ce8701e
1 parent 7435b54
commit ce8701e
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/tallytrin/pipeline_singlecell_macosko/pipeline.yml b/tallytrin/pipeline_singlecell_macosko/pipeline.yml
@@ -39,7 +39,7 @@ strip-seq: 1
 
 # minimap2 mapping options
 minimap2:
-   options: -ax map-ont -p 0.9 --end-bonus 10 -N 3 
+   options: -ax splice:hq -uf
 
    fasta_cdna: Homo_sapiens.GRCh38.cdna.all.fa
 
@@ -62,4 +62,4 @@ job_options: -t 48:00:00
 cells: 1000
 
 # Length of cell barcode 
-barcode_len: 12
+barcode_len: 12