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XiaoTaoWang / NeoLoopFinder

A computation framework for genome-wide detection of enhancer-hijacking events from chromatin interaction data in re-arranged genomes
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Can I use NeoLoopFinder for other organisms? #52

Open xinghua1001 opened 1 year ago

xinghua1001 commented 1 year ago

This software is really cool. Can you extend to other organisms?

XiaoTaoWang commented 1 year ago

Hi, certain components of the toolkit, including the "assemble-complexSVs", "neoloop-caller", and the visualization module should already support organisms other than human and mouse. For the CNV inference module however, it takes time to extend to other organisms, as specific reference files (such as mappability, GC content, and density of restriction enzyme cutting sites) need to be generated. Could you please let me know which organism you are working with? I will take it into consideration for the next major update of NeoLoopFinder.