From b47a6aae90338b2ba5b79c3a0fdc0dc2c8e9c131 Mon Sep 17 00:00:00 2001
From: Delaney Sullivan <delaneyk.sullivan@gmail.com>
Date: Wed, 25 Oct 2023 22:38:59 -0700
Subject: [PATCH] update strandedness for split-seq

---
 src/main.cpp | 1 +
 1 file changed, 1 insertion(+)

diff --git a/src/main.cpp b/src/main.cpp
index 50bba778..c43e3265 100644
--- a/src/main.cpp
+++ b/src/main.cpp
@@ -1241,6 +1241,7 @@ bool CheckOptionsBus(ProgramOptions& opt) {
       busopt.bc.push_back(BUSOptionSubstr(1,10,18));
       busopt.bc.push_back(BUSOptionSubstr(1,48,56));
       busopt.bc.push_back(BUSOptionSubstr(1,78,86));
+      strand = ProgramOptions::StrandType::FR;
     } else if (opt.technology == "STORM-seq"){
       busopt.nfiles = 2;
       busopt.bc.push_back(BUSOptionSubstr(-1,-1,-1));