Christian Mertes
Christian Mertes
This PR adds the merging of external splicing counts functionality to DROP. It includes * Add new functionality to merge splice data * Cleanup of [test data](https://www.cmm.in.tum.de/public/paper/drop_analysis/resource_splice_merge.tar.gz) * Additional tests...
When checking for the minimum required sample size, external counts are ignored and not counted. This currently forces to have at least 10 samples to be counted when merging only...
We have to rearrange the code so the full pipeline is not rerun each time some little bit changes in the sample annotation file. Currently, the user-provided sample annotation is...
Currently we only check if the data matrix has the same dimensions. but if the names differ we would merge randomly gene counts which do not match. We should include...
As the psi value computation script currently uses 30 threads by default it can result in high memory consumption, depending on the number of samples and the number of junctions...
As the splitReadsMerge script currently uses 20 threads by default it can result in high memory consumption, depending on the number of samples and the number of junctions detected in...
Sometimes this rule runs into memory issues and hence the bplapply jobs get killed. The result is: ``` attempt to select less than one element in OneIndex ``` A quick...
I'm not sure where the problem is and maybe you can help finding the root of it. When using OUTRIDER on a CentOS 7.7 machine `MulticoreParam` works perfectly. But on...
add `cumulative` to the labels where we have cumulative data.
As we do not currently use the `group` or `condition` column in `colData` we need to remove it from the package to not confuse users as in #26.