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dieterich-lab / circtools

circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line driven software.
http://circ.tools
GNU General Public License v3.0
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Check the processing of single exon genes in terms of circRNA RBP enrichment #44

Closed tjakobi closed 6 years ago

tjakobi commented 6 years ago

How are single exon genes / circRNAs treated when computing the enrichment in contrast to the linear genes?

tjakobi commented 6 years ago

A code audit yielded the conclusion that single exon genes would be processed as all other genes. However, circtools would be unable to call an enrichment between linear and circular RNA because the two regions should be the same. Since the enrichment module counts the number of events in the "only linear" part of the host genes we would not be able to detect any events for the linear part. Currently possible enrichments are not reported since the remainder linear RNA would be reported as length 0 with no observed events.