Commit cf69a1d0 authored by ziegenhain@bio.lmu.de's avatar ziegenhain@bio.lmu.de
Browse files

Fix TwoPass Mapping Switch

parent 3d1926b8

zUMIs-mapping.R

+1 −1
Original line number Diff line number Diff line
@@ -73,7 +73,7 @@ param_misc <- paste("--genomeDir",inp$reference$STAR_index, 
                    "--readFilesType SAM",inp$read_layout)



STAR_command <- paste(STAR_exec,param_defaults,param_misc,inp$reference$additional_STAR_params,param_additional_fa)

if(inp$reference$twoPass=T){

if(inp$counting_opts$twoPass==T){

  STAR_command <- paste(STAR_command,"--twopassMode Basic")

}

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