Nikos Karaiskos

- [ ] For samples with multiple pucks, a puck_collection is not generated. - [ ] The histograms in the beginning of the report seem to be using the unmeshed...

Running `spacemake run downsample` begins downsampling all projects and all samples. If we want to keep this behavior we should at least document it. Otherwise adapt so that the `--help`...

Functionality to migrate a spacemake folder to a newer version. Cmdline is `spacemake migrate`, and currently does the following: - [x] Convert BAM to CRAM - [ ] Remove unnecessary...