Felix Krueger
Felix Krueger
Added test Input and output data for the HISAT2 module.
We currently don't seem to have a description of the context specific methylation totals in the new (and awesome) docs. More information on the report are [here](https://github.com/FelixKrueger/Bismark/issues/321).
### Description of the bug I am trying to launch a methylseq run using the latest `dev` branch where some (but not a all) samples require merging of technical replicates...
It seems like a good idea to pass on additional parameters to Cutadapt, e.g. `--poly-a`. In the current form, this can only be done via the `-a "SEQUENCE --additional_param" workaround,...
Happy 10th birthday SeqMonk! It would be great to add a tick-box when generating e.g. Annotated Probe reports that will back-translate pseudo-chromosome names to the underlying scaffold or contig names...
### Description of the bug On a number of occasions we have had the situation that the demux pipeline encounters the case where a sample in the sample sheet doesn't...
All reports in the Overview Report section currently appear as Other HTML Reports independent of sample name and report type. It would be nice if this would work again.
This PR changes the default output directory to `null` (instead of `./results `) to avoid writing the output to unexpected locations (such as the head node of a cloud instance...)....
### Description of the bug We have observed an interesting behaviour when it comes to the bigWig file generation in both the ChIP-seq as well as CUT&RUN workflow, and I...
### Description of feature We've got a quick request to add an additional plot to the Xenium module to show the number of nuclei detected per cell. The number of...