Question: Pathway Interaction Database with BioC?
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gravatar for A.J. Rossini
12.2 years ago by
A.J. Rossini210
A.J. Rossini210 wrote:
Is anyone working on tools to integrate the Pathway Interaction Database http://pid.nci.nih.gov/PID/index.shtml with BioC? (basically, XML conversion to a graph object to query intersections, relationships, and associations)? best, -tony blindglobe at gmail.com Muttenz, Switzerland. "Commit early,commit often, and commit in a repository from which we can easily roll-back your mistakes" (AJR, 4Jan05).
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ADD COMMENTlink modified 12.2 years ago by Li.Long@isb-sib.ch510 • written 12.2 years ago by A.J. Rossini210
Answer: Pathway Interaction Database with BioC?
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gravatar for Li.Long@isb-sib.ch
12.2 years ago by
Li.Long@isb-sib.ch510 wrote:
Hi, Tony, A while ago, I prepared the package "pathRender" to render pathway info from cMAP database. For a long while, cMAP cmap.nci.nih.gov) download provides inconsistant/incomplete data, compared to online query. As a result, the data you get from bioC package "cMAP" is different from those you see online. The PID database indicates some data are from BioCarta (which is part of cMAP as well), probably it's time to take another look at these packages and do something about it. Best, Li > Is anyone working on tools to integrate the Pathway Interaction Database > http://pid.nci.nih.gov/PID/index.shtml with BioC? (basically, XML > conversion to a graph object to query intersections, relationships, > and associations)? > > best, > -tony > > blindglobe at gmail.com > Muttenz, Switzerland. > "Commit early,commit often, and commit in a repository from which we can > easily > roll-back your mistakes" (AJR, 4Jan05). > > _______________________________________________ > Bioconductor mailing list > Bioconductor at stat.math.ethz.ch > https://stat.ethz.ch/mailman/listinfo/bioconductor > Search the archives: > http://news.gmane.org/gmane.science.biology.informatics.conductor >
ADD COMMENTlink written 12.2 years ago by Li.Long@isb-sib.ch510
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