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Linkage_pull.pl code #16

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Avramis opened this issue May 24, 2024 · 0 comments

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Avramis commented May 24, 2024

The source code for Linkage_pull.pl in the dpclust3p/R/preprocessing.R file is deprecated and should be removed.

Adjust the commands

cmd=paste(LINKAGEPULL, " ", nearbyMuts_file, " ", bam_file, " ", bai_file, " ", zoomed_phase_file, " Mut", sep="")

in line 181 within the run_linkage_pull_mut function, and

cmd=paste(LINKAGEPULL, " ", linkedFile, " ", bam_file, " ", bai_file, " ", outfile, " SNP", sep="")

in line 276 within the run_linkage_pull_mut function to call the currently used function.

jcesar101 assigned jcesar101, Avramis and davidwedge and unassigned jcesar101

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