phylosofs-team / thoraxe

Use Thor's Axe to cut exons into their evolutionary building blocks :zap:

ThorAxe

Assessing Conservation of Alternative Splicing with Evolutionary Splicing Graphs

Status	Linux	Windows

Please refer to the documentation for installation instructions and more information.

Check out our video tutorial to see how you can easily use ThorAxe and visualise the results! If you want to know more, you can read our Genome Research publication:

Zea DJ, Laskina S, Baudin A, Richard H, Laine E. Assessing conservation of alternative splicing with evolutionary splicing graphs. Genome Research. 2021 Jun 15:gr-274696. doi: 10.1101/gr.274696.120.

You can install ThorAxe from PyPI and run it locally. You can also use our Docker image or run it online with interactive outputs thanks to the Ases web server.

thoraxe's Issues

software related questions

Dear diegozea，
Thank you for providing very useful software.
I would like to know, can the software use the data not from the Ensembl database completely but from the data assembled by myself
with regards

save ENSEMBL + genome version

add_transcripts

Hi @diegozea :
As you mentioned in document. same question as me #4

This script add_transcripts should run after transcript_query and before thoraxe.

If the species I am studying is not a model species, I cannot use transcript_query to query. How should I organize the input files required by thoraxe ?

Best wish
zpliu