What are the best tools to annotate CNV data from TCGA GDC data portal?

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Mohammad Tarek

http://bioinf.iasi.cnr.it/tcga2bed

ftp://bioinf.iasi.cnr.it/

this tools helps to search and retrieve TCGA data. More interestingly, it supports the conversion in CSV, GTF, JSON, and XML standard formats.

Rupa Bhowmick

Thanks for your reply. I will check the same.

Mohit Arora

We have used multiple tools to analyze TCGA data. Links have been attached in the paper for easy reproduction. It will help for a good start with TCGA

Article Expression pattern, regulation, and clinical significance of...