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GuoBioinfoLab / CATT

An ultra-sensitive and precise tool for characterizing T cell CDR3 sequences in TCR-seq and RNA-seq data.
http://bioinfo.life.hust.edu.cn/CATT/
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Use of CATT for non-human T cell receptor sequence #1

Open Dharmendra-G-1 opened 4 years ago

Dharmendra-G-1 commented 4 years ago

Hello, I really like the way you are using these tools to characterize T cell receptor sequence in Human, I have pulled the Docker image and try to use it for non-human sample i.e. pig. I am interested in characterizing T cell receptor sequence for Pig. Can you please let me know if I can change reference seq in your docker image/ Dockerfile, that would be very helpful and much appreciated.

With Regards, Dharm

aqzas commented 4 years ago

Hi, Dharamendra, sorry for the late reply and thanks the advise.

Indeed, people can change the reference in the docker image in /catt/resource/ and configure the setting in /catt/reference.jl. But it's a little complex to build reference in format that CATT required. I will make it possible in next version.

As for now. I updated a beta version of CATT that can handle the TCR of pig. Please re-pull the Docker image as guobioinfolab/catt:dev and run with options --species pig.

Feel free to tell me any problems and advise. (I will response much much more quickly this time)