From b7016e669421c99c0ef6b8060da3c1e36892c349 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 19 Aug 2018 13:16:52 -0500
Subject: [PATCH] Increase QuSAGE downsampleling to 50K
---
r.scripts/sc-TissueMapper_RUN.D17.R | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/r.scripts/sc-TissueMapper_RUN.D17.R b/r.scripts/sc-TissueMapper_RUN.D17.R
index 31fad99..f050771 100644
--- a/r.scripts/sc-TissueMapper_RUN.D17.R
+++ b/r.scripts/sc-TissueMapper_RUN.D17.R
@@ -98,7 +98,7 @@ option_list=list(
make_option("--stg",action="store",default="go",type='character',help="Geneset to use for stress ID"),
#make_option("--hpc.poststress",action="store",default=0.85,type='numeric',help="Max variance cutoff for PCs to use, post-stress"),
make_option("--res.poststress",action="store",default=0.2,type='numeric',help="Resolution to cluster, post-stress"),
- make_option("--ds",action="store",default=10000,type='integer',help="Number of cells to downsample"),
+ make_option("--ds",action="store",default=50000,type='integer',help="Number of cells to downsample"),
#make_option("--hpc.epi",action="store",default=0.85,type='numeric',help="Max variance cutoff for PCs to use, Epi"),
make_option("--res.epi",action="store",default=0.2,type='numeric',help="Resolution to cluster, Epi"),
#make_option("--hpc.st",action="store",default=0.85,type='numeric',help="Max variance cutoff for PCs to use, St"),
--
GitLab