John Reeves
John Reeves
My understanding is that the assumption behind Tangram is that the same biological processes generated both the SC data and the ST data, and that ideally both data sets will...
Files that have been added via `dvc import-url` can be indvididually downloaded from their source location via `dvc update `, but `dvc pull` looks for the files on the remote....
At the moment (v2.58.2), `dvc remove {target.dvc}` first unprotects `{target.dvc}`, at least when applied to `.dvc` files. I'm sure that this is a good reason for this, but this can...
We have several large DVC-controlled projects. One example is over 10TB. The "raw" input data includes about 3000 larget files ranging in size from 5GB to 100GB or more. Building...
`souporcell_pipeline.py` captures STDERR streams to `.err` files but then deletes many of these, making troubleshooting difficult. This PR simply deletes the lines that delete the `.err` files.
The `--sc_model` option hints that it might be possible to 'recycle' an sc model that has already been fitted in a previous `run`. Is this the case? If so, how?...
`SpatiallyVariableFeatures()` throws the following warning with R4.1 and Seurat 4.0.4: `Warning in xtfrm.data.frame(x) : cannot xtfrm data frames` I think this crops up in line 501 of `assay.R` when `order()`...
This is a very cool tool, and it solves an important problem for us. I'd recommend it to all of my teammates if only it were a little easier to...
The readme talks about converting conda environments to Docker containers but at the moment the tool seems focused on Singularity. Have I missed something? @DRSEI
`dvc checkout` is very convenient, especially when called as part of the `post-checkout` git hook. In fact, this is fairly crucial to keeping the git state aligned with the dvc...