Norbert Bittner

Sorting error with bwa Hi-C mode aligned files

5

Hi all, i have a bit of a problem when using a modified approach of aligning my Hi-C data with the bwa-mem algorithm. I'm using HiCExplorer version 3.7.2 and python...

[-d topDir] argument is not passed correctly to -i argument for postprocessing

1

**Describe the bug** When running the juicer pipeline with the following command `./opt/scripts/juicer.sh -S final -D $(readlink -f opt) -z $(pwd)/opt/references/hg38.p13.fa.gz -d $(pwd)/L79851_Track-123454/ -p hg38 -t 32` it is not...

Hi I'm stuck at the moment to generate a decoy file from two transcriptome fasta files (A. thaliana cDna and ncrna from Ensemblplants). I tried several ways of putting both...