-
I have been running the pipeline with the default code and test data as provided in the repository. However, I found that the *bam index* file produced has a naming convention different from what the …
-
I'm new to WDL but I think everything worked fairly until I've separated the tasks into different files. The tasks are in the same directory and not empty. I've attached the tasks for reference. The e…
-
My previous change to attempt to make qualimap bamqc output easier to work with in multiqc now has qualimap failing when the name is too long or complicated (which I did not think to test my bad). An …
-
I think we've brought this up before, might be a required pararead thing? can we make this less verbose?
```
Target to produce: `/project/shefflab/processed/paqc/results_pipeline/GSM4289908/QC_hg…
-
I got a error message that I cannot not run the nextflow anymore.
This error is caused by `Cannot invoke method toInteger() on null object`
Can anyone help this issue?
the log is following:
…
-
Issue by @apeltzer, moved from SciLifeLab#670
> **Is your feature request related to a problem? Please describe.**
> The target coverage is computed in BAMQC based on the entire genome.
> For e…
-
Dear @ewels ,
First off all thanks for your neat tool and all the effort you put in it!
**Description of bug:**
When using multiqc on data stored on a CIFS share I get an error. CIFS shares do …
-
**Is your feature request related to a problem? Please describe.**
The target coverage is computed in BAMQC based on the entire genome. For exome data (even with specified BED file and therefore re…
-
**Tool Details**
- Name of tool: Dragen Bio-it on-premise
- Tool homepage: https://emea.illumina.com/products/by-type/informatics-products/dragen-bio-it-platform.html#learn-more-onprem
- Tool de…
-
Hi Brent,
We were using mosdepth to estimate the average coverage in our whole exome sequencing samples, and it didn't sum up with what we expected from napkin calculations using simply the reads n…