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YangLab / CIRCexplorer2

circular RNA analysis toolset
http://circexplorer2.readthedocs.org/
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Does CIRCexplorer2 pipeline only works with mouse and human?? #45

Closed sambhav2mishra closed 3 years ago

sambhav2mishra commented 3 years ago

Dear YangLab

You guys have done an amazing piece of work. Thanks for that. I have a question I tried to do circRNAs detection using this pipeline but in the annotation module we require a ref file (e.g hg38_ref_all.txt) but how do I perform analysis with different genome other than mouse and human?? or is this pipeline only limited to hg19/hg38/mm9/mm10? :)

kepbod commented 3 years ago

If you have the genome sequence and gene annotations of the corresponding genome, you could apply CIRCexplorer on whatever genome you want. The format of gene annotations should be compatible to CIRCexplorer (https://circexplorer2.readthedocs.io/en/latest/modules/annotate/). If you have no idea how to convert file format, you could refer to Issue #43.

sambhav2mishra commented 3 years ago

Thank you so much. It worked perfectly.