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Commit 0874bca6 authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Change post stress res to 1 and fix Pb subset

parent caf53b71
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......@@ -107,7 +107,7 @@ option_list=list(
make_option("--st",action="store",default=TRUE,type='logical',help="Remove stressed cells?"),
make_option("--stg",action="store",default="dws",type='character',help="Geneset to use for stress ID"),
make_option("--cut.stress",action="store",default=0.9,type='numeric',help="Cutoff for stress score"),
make_option("--res.poststress",action="store",default=0.5,type='numeric',help="Resolution to cluster, post-stress"),
make_option("--res.poststress",action="store",default=1,type='numeric',help="Resolution to cluster, post-stress"),
make_option("--cut.ne",action="store",default=0.999,type='numeric',help="Cutoff for NE score")
)
opt=parse_args(OptionParser(option_list=option_list))
......@@ -116,7 +116,7 @@ if (opt$lm==0){opt$lm=-Inf}
sc10x <- scLoad("Pb")
sc10x <- scSubset(sc10x,i="Tumor",g="Tumor")
sc10x <- scSubset(sc10x,i="Glandular",g="Glandular")
if (opt$cc==TRUE){
results <- scCellCycle(sc10x)
......
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