Dear Ewan, thank you for your reply. One more question: the UCSC genome browser has a very useful feature: to download track data simply by providing a URL, e.g.:
http://genome.ucsc.edu/cgi-bin/hgTracks?db=hg19&hgt.customText=http://URL_OF_BED_FILE.gz (loads the file from the given URL and displays the track in the browser, in this case for hg19). Does Ensembl genome browser support something similar? We are building a pipeline and would like to display new tracks in the browser with one click (simply opening a URL in a new browser window). thank you, best regards, Gregor On 12/28/2010 8:32 PM, Ewan Birney wrote: > > Gregor: > > The Dictyostelium discoideum genome is in the Ensembl Genomes > project (sister project to Ensembl, using the same software) > at: > > http://protists.ensembl.org/Dictyostelium_discoideum/Info/Index > > > Ensembl Genomes Release 7 supports many of the common user upload > formats, including indexed BAM files and the well used UCSC formats, > such as bed, wig and bedgraph. I've blogged about this recently > at: > > http://ensembl.blogspot.com/2010/12/beds-wigs-bams-and-variants-for-flies.html > > > > We don't have Dictyostelium purpureum but it is in scope to add; we'd be > aiming to work with the Dicty community if we were to. > > > > Ewan Birney > > > > > On 28 Dec 2010, at 19:11, Hiram Clawson wrote: > >> Good Morning Gregor: >> >> Please note this discussion: >> >> http://genomewiki.ucsc.edu/index.php/How_to_submit_a_new_genome >> >> Please note, our focus here at UCSC is on vertebrate genomes. >> We do not display amoeba genomes. You could install a local >> copy of the genome browser to host these genomes at your >> institution. >> >> --Hiram >> >>> Dear UCSC team! >>> >>> Congratulations on the great work in building the genome browser. >>> >>> I am wondering if there is a way to add a new genome to your browser, i >>> would like to add 2 genomes: >>> >>> Dictyostelium discoideum >>> Dictyostelium purpureum >>> >>> The assembly and annotation are both available from http://dictybase.org >>> >>> Thank you & best regards, >>> Gregor >>> >>> ---------- >>> Gregor Rot >>> http://www.fri.uni-lj.si/en/gregor-rot >>> Bioinformatics Laboratory >>> Faculty of Computer and Information Science >>> Trzaska 25 >>> 1000 Ljubljana >>> Slovenia >> _______________________________________________ >> Genome maillist - [email protected] >> https://lists.soe.ucsc.edu/mailman/listinfo/genome > _______________________________________________ Genome maillist - [email protected] https://lists.soe.ucsc.edu/mailman/listinfo/genome
