Steven Wingett

Hi @taoliu Thanks for getting back to me. I'm glad that solves the issue. I presume for non-standard genomes you would advise running the DeepTools unique-kmers.py script to determine the...

Thanks

I also agree with this proposal. I have been processing hundreds of RNA-seq datasets and this step of the pipeline fails after 8 hours. Furthermore, since I have set automatic...

Maybe look at adding subroutines shared with hicup2ncc to the modules file.

This was mentioned in: https://github.com/StevenWingett/HiCUP/issues/57#issuecomment-900505087

The is already and Anaconda (Bioconda) recipe: https://bioconda.github.io/recipes/hicup/README.html I have tried pushing changes to this at: https://github.com/bioconda/bioconda-recipes/blob/master/recipes/hicup/meta.yaml

The same problem also occurs when using a HiCUP config file. **However, the problem seems to be with Bowtie2 (v2.4.1) and not HiCUP.** The problem occurs after passing the --no-unal...

Email [email protected] about this when completed.

Hi, Just seen your pull request. I'll take a look next week. Many thanks!

Hi Nadine, Thanks for the message and interest in FastQ Screen. My idea is that by creating a Docker image, users can then simply create a Singularity image from that...