Errors in merge_replicates_barcode_counts.py when BC threshold too high

[pi-zz-a]

I set the BC threshold to minimum 10, which appeared to be too high for my dataset. An empty dataframe was returned after filtering, which in turn results in a missing key error for the keys "dna_count_1" "rna_count_1" etc. To make this more intuitive, either an error returning an explanation, or creating an empty filtered file, or both, would be good.

[visze]

It seems to be that # order columns to have dna then rna count of each replicate expects a certain number of columns but

df = df.pivot_table(

does not create them.

So the script is buggy. Possible solutions are:

1. check input files and throw exception when one of them is empty
2. pivot tables and add headers if they do not exist. then order them later.