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cbg-ethz / scdna-pipe

Python data analysis pipeline for single cell copy number event history reconstruction
Apache License 2.0
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Add tests and example output #5

Open pedrofale opened 5 years ago

pedrofale commented 5 years ago

Need unit tests and one example complete run with output stored in the repo to easily check the expected output of each pipeline version. Only update the SOP version once the tests pass and sample outputs seem reasonable.

I think the first thing we should do is add some CI job that runs the pipeline from the rules after run_cellranger. We can use this public data set: https://support.10xgenomics.com/single-cell-dna/datasets/1.0.0/colo829_G1_1k.

pedrofale commented 4 years ago

The public data set contains too many cells to be practical for testing. We can just run a TP sample locally and store the output figures in this repository for each push to the master branch.