Question: Bioconductor Graphite package : Cannot retrive pathways
2
gravatar for ES.67
3.2 years ago by
ES.6720
ES.6720 wrote:

Hello everyone

I am trying to use this package graphite for pathway analysis from gene expression data of Rice( Oryza sativa) . However, I cannot retrieve the pathways from kegg using this package. I am using this code osa <- pathways("Oryza sativa" , "kegg")

Firstly can it be used for organisms other than listed in pathwayDatabases() ? If so, how to do that ?

Thanks in advance.

pathways bioconductor R • 1.1k views
ADD COMMENTlink modified 3.2 years ago • written 3.2 years ago by ES.6720
1

What's the version of graphite you're using ? Non-human data has only been made accessible from version 1.14.

ADD REPLYlink written 3.2 years ago by Jean-Karim Heriche23k

I am using version 1.22.0.

ADD REPLYlink written 3.2 years ago by ES.6720
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 743 users visited in the last hour