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iRNA-COSI / APAeval

Community effort to evaluate computational methods for the detection and quantification of poly(A) sites and estimating their differential usage across RNA-seq samples
MIT License
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feat(Summary workflow): check that PAS are reported as single nucleotide in input bed #458

Open ninsch3000 opened 1 year ago

ninsch3000 commented 1 year ago

The input bed file validation of the summary wfs could be improved in several aspects; this particular issue requests a check to make sure PAS are reported as single nucleotide, as is required by the APAeval specifications. This could be easily implemented by checking whether start and end differ by 1. For corresponding code see https://github.com/iRNA-COSI/APAeval/blob/50fb980e76b326ae0daae0bf9f1783886b26fc66/summary_workflows/quantification/quantification_dockers/q_validation/validation.py#L123