Gregor Sturm
Gregor Sturm
```python fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(12, 4), gridspec_kw={"wspace": 0.6}) ir.pl.group_abundance( adata, groupby="receptor_type", target_col="source", ax=ax1, ) ir.pl.group_abundance( adata, groupby="receptor_subtype", target_col="source", ax=ax2, ) ```  Adding `style=None` works around the...
In GitLab by @grst on Mar 31, 2020, 16:52 We need it regulary to get the top n of a category, e.g. v-gene or clonotype. This can be achieved in...
With the implementation of the new datastructure (#327), it becomes rather tricky to get information from the airr rearrangment schema (e.g. what is the "c_call" of the primary "VJ" chain?)....
Bar segments are currently sorted by their size. They should either not be sorted (and take their natural ordering of the categorical), or introduce an additional argument that allows to...
The suggestion was brought up to build an interactive version of the `vdj_usage` sankey plot, to appreciate less abundant gene combinations by hovering over the respective segments. While this single...
In GitLab by @grst on Jan 24, 2020, 14:06 Here's a quite recent re-implementation of sequence logos in Python that looks promising: https://github.com/jbkinney/logomaker We will also require an algorithm for...
In GitLab by @grst on Mar 20, 2020, 18:17 Maybe also the STARTRAC indexes could be of interest: https://www.ncbi.nlm.nih.gov/pubmed/30479382
I think it would be great if the samplesheet could handle additional columns (which would be ignored by the RNA-seq pipeline, but would be used by some downstream analysis). Keeping...
We need a way to handle modules with custom scripts. Ideally this could be handled by nextflow by * either considering `bin` directories within `$moduleDir` automaticall, see https://github.com/nextflow-io/nextflow/issues/1798, * or...
Editing and running markdown files is a great idea! Unfortunately for me it did not work out. When opening a markdown file in jupyter notebook a red box appears next...