Error in if (MaxCorr[i] < corr_thresh) { : missing value where TRUE/FALSE needed about decon

[zhuying412]

are you resolved it? i got the same error.

[yuanpingdu]

Instead of replacing colnames(ExomeCount)[1:length(sample.names)+4]=sample.names for colnames(ExomeCount)[1:length(sample.names)+5]=sample.names

I would put the following:

if(names(ExomeCount)[5]=="GC"){ colnames(ExomeCount)[1:length(sample.names)+5]=sample.names #assigns the sample names to each column }else{ colnames(ExomeCount)[1:length(sample.names)+4]=sample.names }

The thing is that if you leave the --fasta parameter NULL in ReadInBams.R then RData dataframe generated has 1 less column because GC content is not computed, so GC column does not exist.