CellBench
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Shians
R package for benchmarking single cell analysis methods
Progress reporting would be useful for applying pipelines. Can do this at the method step checkpoints and/or BiocParallel level.
Currently CellBench stores every result for each step before moving on to the next step. It's possible to reduce memory burden by running single pipelines to the final result before...
At the moment `task_error` objects are propagated for the purposes of recording errors in method calls. A class `task_stop` could be implemented with similar functionality but based on custom stop...
When applying a metric as a method, the results are a list and the metric type is in a column. The desire behaviour would be a vector column with the...
Either add column selection or exclude to `pipeline_collapse`, most likely exclusion because final column set needs to retain order.
Once categories have been defined in #4, each category should have a shared conceptual framework to be explained in a vignette.
For categories of API defined in #4 * Add in functions with related usage
Check exported functions and * Check for adequate documentation * Check examples are runnable * Check arguments are consistent with other API within package * Consider categorisation of function *...