Hi Jennifer, Thanks for the quick reply. I would prefere to use the sessions rather than the mirror.
I have referred to the Microarray track Wiki page but still not sure about several key aspects: 1) do I have to physically load the .CEL files in microarrayGroups.ra? 2) What numbers are represented in the expScores? Can I use any numbers here (i.e. Fold Change) for the representation of the heatmap scale? 3) Am I required to provide the Mean and Median? 4) how do I get access to microarrayGroups.ra (kent/src/hg/makeDb/hgCgiData)? Do I need to consult a UCSC mirror administrator? Thanks again and looking forward to your reply. Cheers, Rathi On Fri, 02 Oct 2009 02:26:51 +1000, Jennifer Jackson <[email protected]> wrote: > Hello, > > Do you want to load the data as a Custom track at UCSC (perhaps saved in > a Session)? Or do you want to load the data into your own mirror > database? > > If a Custom track at UCSC is your goal, follow these instructions > (below) and submit using the Custom track page. Consider using a Session > to save data for longer than 48hrs on the server. The wiki link that you > used is a great place to learn about formatting and should be followed. > > http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#CustomTracks > http://genome.ucsc.edu/goldenPath/help/hgTracksHelp.html#Sessions > > Thanks, Jennifer > > > ------------------------------------------------ > Jennifer Jackson > UCSC Genome Bioinformatics Group > > ----- "Rathi Thiagarajan" <[email protected]> wrote: > >> From: "Rathi Thiagarajan" <[email protected]> >> To: [email protected] >> Sent: Thursday, October 1, 2009 12:19:10 AM GMT -08:00 US/Canada Pacific >> Subject: [Genome] Microarray track advice >> >> Hi there, >> >> I am very interested in representing the Mouse Embryonic Kidney >> Subcompartment Microarray Atlas (Affymetrix M430.2, over 50 .CEL >> files) >> published in Dev. Cell in 2008 by Eric Brunskill et. al as a >> microarray >> track (i.e. GNF Atlas /Affy Exon track), but don't know where to >> start. >> >> I have referred to the Microarray track Wiki page but still not sure >> about >> several key aspects: >> 1) do I have to physically load the .CEL files in >> microarrayGroups.ra? >> 2) What numbers are represented in the expScores? Can I use any >> numbers >> here (i.e. Fold Change) for the representation of the heatmap scale? >> 3) Am I required to provide the Mean and Median? >> 4) how do I get access to microarrayGroups.ra >> (kent/src/hg/makeDb/hgCgiData)? Do I need to a UCSC mirror >> adminstrator? >> >> >> Thanking you in advance for you advice, patience and feedback. >> >> Cheers, >> Rathi >> >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome -- _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
