To whom it concerns: We want to serve up several custom tracks using the UCSC browser. Our data consists of SNPs identified in a collection of resequenced inbred strains (of Drosophila). Ideally we want a very compact representation of SNPs where each "track" is a different individual with SNP positions consisting of small square colored according to the allele at that position. I do not see an easy way represent such a track at present -- the current SNP track is more suited to population aggregate information (such as the frequency of the SNP) -- but we are interested in individual haplotypes. It would be nice if we could chose among a dozen or so colors...(to represent indels etc in addition to ACGT)
A related track of great interest would have little squares (as above) but allow for heterozygous individuals (e.g., a human HAPMAP individual). Perhaps this could be accomplished via a subdivided square where one half could be one color and the other another, with several colors to chose from. I apologize if this is a silly questions but I do not see an easy way to represent this data, and such a track would seem to be of interest in any system where a core group of individuals are highly characterized (e.g., human HAPMAP, Drosophila, mouse collaborative cross, etc). If some track already exists perhaps all I need is a point in the correct directions. Thanks. Anthony Long Professor, Ecology and Evolution U.C. Irvine 92697-2525 Ph: 949-824-2562 http://cstern.bio.uci.edu _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
