On Jan 5, 2016 7:01 PM, "Tim Triche, Jr." <tim.tri...@gmail.com> wrote: > > 1) this is a support.bioconductor.org question > 2) don't use .db0 packages, you will rue the day you did
Can you expand on this statement? Right now all of the ChipDb are built using a db0 package, so it's not clear to me why this might be a problem. > best, > > --t > > On Tue, Jan 5, 2016 at 3:53 PM, Zhilong Jia <zhilong...@gmail.com> wrote: > > > Hello, > > > > Happy new year. > > > > What is the common work-flow to build an microarray annotation package, > > like hgu133a.db. > > > > For some array, there are probe sequences available, then maybe mapping is > > used? While for other situations, how to deal with? If code used by the > > team available, that will be great. Thank you. > > > > The specific goal is to build new platform annotation packages which are > > not available now from Bioconductor (what I need is just probe to gene > > symbols). > > > > It seems Bioconductor update the annotation package when a new version > > releasing due to the update of gene symbols. > > > > BTW, why name it as hgu133a.db instead of GPL96.db (from GEO) in > > Bioconductor? And user have to find the mapping relationship between them, > > though there are some mappings, such as > > https://gist.github.com/seandavi/bc6b1b82dc65c47510c7#file-platformmap-txt > > . > > > > > > Regards, > > Zhilong > > > > -- > > Zhilong JIA > > zhilong...@gmail.com > > https://github.com/zhilongjia > > > > [[alternative HTML version deleted]] > > > > _______________________________________________ > > Bioc-devel@r-project.org mailing list > > https://stat.ethz.ch/mailman/listinfo/bioc-devel > > > > [[alternative HTML version deleted]] > > _______________________________________________ > Bioc-devel@r-project.org mailing list > https://stat.ethz.ch/mailman/listinfo/bioc-devel [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
