djvdj
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rnabioco
An R package to analyze single-cell V(D)J data
[rcmdcheck fails on macos-latest](https://github.com/rnabioco/djvdj/actions/runs/3364794309/jobs/5579557574#step:6:66) because of these warnings: ```r Warning: Found the following significant warnings: Warning: namespace ‘rgdal’ is not available and has been replaced Warning: namespace ‘DBI’ is not...
* The `import_vdj()` function is too long, divide into smaller functions
- update description description, version, biocviews, and lazydata - slot accessors in vignettes part of #108
Ideally the test suite would finish in less than a minute. Right now it's > 5 minutes: ```r ==> devtools::test() ℹ Testing djvdj ✔ | F W S OK |...
There are lots of these warnings in the tests after [new tidyselect](https://github.com/r-lib/tidyselect/issues/169): ```r Warning (test-filter-vdj.R:104): filter_vdj all cells filtered Use of .data in tidyselect expressions was deprecated in tidyselect 1.2.0....
https://rnabioco.github.io/djvdj/articles/clustering.html#cdr3-motifs so they come out `1,2,3...` instead of `1,10,11...`
CRAN / Bioconductor won't allow downloading of external data; it won't pass their checks. We can't use `download.file` anywhere. Need to: 1. Generate a smaller data set (a sample of...
Need informative and consistent error messages: * When the specified chain (provided to `chain` argument) is not present in the data (e.g. if you try to select a TCR chain...
* allow user to select specific chain for calculating frequency