KEGG FTP Database URL

Question

[thorwahl]

I'm looking into using KEGG as part of my RNA-seq research. However, I'm a first-time user of KEGG and am not familiar with the user-interface. Does anyone know of a direct ftp link to the KEGG database? According to this link (http://www.bioinformatics.jp/en/keggftp.html), I require a subscription to see a direct FTP link. However, before subscribing, I would want to see a sample of what I would be paying for. As such, I'd be interested in at least seeing the existence of a direct FTP link, which seems to not exist anywhere on the KEGG website. I'd appreciate any feedback.

[andrew]

It seems your comment would be best directed to KEGG. However as a licensed corporate customer of KEGG, I believe they are moving away from FTP. They have already forced us to use their API.

[thorwahl]

Thanks for the help

[ulah]

Depending on what you want to do with the data, you may alternatively consider using R's pathview package (http://pathview.r-forge.r-project.org/) as it uses kegg pathways.

Answer 1

[Shicheng Guo]

KEGG has been changed to commercial version. No free data can be provided by any FTP server. You can use DAVID to analysis the pathway enrichment. https://david.ncifcrf.gov/

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