rob123king
commented
2 months ago also is there a test data set from dryad that I can take that has matching table of what to expect from pipeline, like table of number of reads, number of telomere reads, telomere length etc. so can double check pipeline is performing as should do?
"We mapped reads to the pangenome to efficiently capture telomere length across the diverse population. A references file of 500kb of subtelomere sequences was assembled from each of the genomes (44) in the pangenome. "
I've found the HG002 and chm13 references that were prepared for the pipeline on data dryad but can't see the pangenome that you created. I may have missed it but could you please upload the pangenome you used in your analysis??