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Xinglab / DARTS

Deep-learning Augmented RNA-seq analysis of Transcript Splicing
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How to get cis-Feature of my data #21

Open WMM1010 opened 2 years ago

WMM1010 commented 2 years ago

Exception: no ID could be matched with cis- file; check your Darts-flat ID column or if you supplied the correct cis-feature file.

zj-zhang commented 2 years ago

Hi @zcpan Have we released the featurization scripts for Darts somewhere, or have plans on releasing? Basically users should be able to generate their own cis-features given an alternative-splicing event definition (event type, coords, strand) and a genome FASTA file.

zcpan commented 2 years ago

Hi @WMM1010, we are planning to add the sequence feature annotation function to DARTS soon. We will keep you posted.

WMM1010 commented 2 years ago

Through your article, I found that the calculation of cis-feature came from the nature literature "Deciphering the splicing code" in 2010 and "The human splicing code reveals new insights into the genetic determinants of disease" in 2015, but their resources have run out.I wonder if their resources remain on Github, if so, can they be shared? Thank you!