I've just finished an enhancement to the SNPlotyper tool that connects the application up to the R statistical package so it can use hierarchical clustering to order the strains. This means that you can define a region, select the strains you wish to analyze and then use the clustering option to group the strains based on similar genotype across the region. You can still manually order the strains as before by using the drag and drop feature on the main SNPlotyper form.

Latest Screen Shot of new Web site redesign.

I have updated the SNPlotyper tool (http://snplotyper.mcw.edu) with the full STAR SNP and genotype data. There were a few related bug fixes and interface improvements that went along with it too but now we have all 20,000+ SNPs and their genotypes in over 300 strains in the tool and able to be used.

Please feel free to give the tool a try and let me know how it goes. Any thoughts for improvements to the interface or other suggestions for the analyses would be most appreciated.

Simon.

We've Updated our Gviewer tool to use our flash GViewer instead of the SVG based one. It also displays the list of Ontology terms that matched your query. Please let us know what you think.

See : http://rgd.mcw.edu/gviewer/Gviewer.jsp

This year the 2nd International Biocurator Meeting will be held in San Jose, CA, October 25 to 28. Check the site at:
http://biocurator.org/Mtg2007/index.html

You can search and browse the submitted Abstracts - talks and posters.

I and Stan will be attending the meeting.

Attached is my poster on pipelines at RGD

We are currently underway with a complete site redesign here at RGD. We are starting with the homepage, which needs a complete overhaul. Goals are to make it easier to navigate along with the ability for our staff to provide better communication with the community. Attached is a screen shot of the 0.1 Beta of the look and feel of the new homepage. We'll post the 0.2 version this week before asking for comments from the entire staff.

We've released a new copy of the RGD Strains file on our FTP site. As an added bonus we're generating an XML version also.

See: ftp://rgd.mcw.edu/pub/data_release/STRAINS.xml

Expect more XML versions of our data soon. These files will be updated weekly.

We're releasing an updated QTL file today on RGD. See:

ftp://rgd.mcw.edu/pub/data_release/QTLS

This is being down with a new program that will be running every weekend from now on. Sorry for the delay and let us know if you have issues with this file.

Here's the poster we presented for the Apropos annotation tool at the MSCBB conference last Saturday (note its a rather large PDF at 6Mb). There was a pretty good turn out for this first annual meeting and the poster session was well attended. As an aside, the weather was great, the traffic was not so great (at least for those of use coming down from Milwaukee...) and powerpoint presentations still don't transfer seamlessly from PC to Mac.