scholl-lab / plasmicheck

Detect and quantify plasmid DNA contamination in sequencing data
MIT License
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Feature Request: Benchmarking Dataset Creation #72

Open berntpopp opened 1 month ago

berntpopp commented 1 month ago

Description: Implement a module to create a benchmarking dataset. This dataset will serve as a standard for comparing and validating the performance of various features and functions within the project. The benchmarking dataset should include a diverse set of samples with known contamination levels and characteristics.

Tasks:

berntpopp commented 4 weeks ago

https://github.com/GeorgetteTanner/w-Wessim2

--> run against human and plasmid sequence -->downsample plasmit to different concentrations

berntpopp commented 4 weeks ago

also check out: https://www.nature.com/articles/s41437-022-00577-3