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Frenzchen / circRNA_paperScripts

Repository for the publication "Circular RNA repertoires are associated with evolutionarily young transposable elements" (Gruhl et al 2021. eLife).
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More of a question about Figure 2 #2

Open tractatus opened 3 years ago

tractatus commented 3 years ago

Hi Franziska,

Sorry to bother you again. And thanks for the amazing paper and this repo!

Ive been looking through the script here and the data and Im trying to reproduce Figure 2 and S2, basically Im interested in getting the gene lists that are the basis for the hierarchical gene circRNA loci overlap between species and if I can split it up further by tissue type.

But I guess the circRNA loci overlap between species was made from a script running of the GTF files Supplementary File 1-5? No?

All the best, Daniel

Frenzchen commented 2 years ago

Hello Daniel,

Sorry for this very late reply. Yes, the circRNA GTF files (Supplementary Files 1-5) were used as starting point for this analysis. I have now provided more information on how Figure 2A was created (see corresponding README file), together with the data files and some of the helper scripts. The repository has also beed updated with the final versions of all scripts and files for the accepted paper version.

All the best,

Franziska