I created a quick video tour of RGD’s SNPlotyper tool demonstrating how to use SNPlotyper to visualize and compare SNPs between sets of inbred rat strains. In this screencast I show how to configure the tool to select a region of chromosome 1 between 120Mb and 130Mb and then view SNP genotypes for F344 and [...]
Unfortunately the live video recording didn’t work from the presentation today but I do have the audio which I will upload here in due course. In the meantime here is the final slide with the URLs for the websites and tools that I mentioned. If people are interested in specific sections I can do a [...]
It allows you to enter search terms and then run a search on RGD, either over the whole database, or for specific objects such as Genes, QTLs, ontologies, etc. You select the scope of the search, enter your term or phrase and hit enter and the results appear in a new safari window. Here are a few screenshots:The main screen, drop down menu and search field:The backside of the widget - spooky rat!if you are interested in giving it a try, you can download the widget as a .zip file: RGD.wdgt.zipApple requests that the following blurb be available on a widget’s download page so here it is:Mac OS X 10.4 Tiger is required.
I’m testing a new Dashboard widget called WordPress Dash that allows me to post to the blog from my laptop’s dashboard. Nice idea, perhaps it will encourage me to post a bit more often!
addthis_url = ‘http%3A%2F%2Ftwigger.hmgc.mcw.edu%2Findex.php%2F2006%2F04%2F14%2Fwordpress-dash%2F’;
addthis_title = ‘WordPress+Dash’;
addthis_pub = ’simont’;
Bookmarklets (small javascript program that can be stored as a URL within a boookmark) seem to be cropping up a lot recently. I did a little bit of reading and following the example on the WikiPedia page created something simple to search RGD.
In an idle moment at the MOBY-DIC meeting last weekend (developers meeting for the BioMOBY project), I downloaded the list of service authorities from MOBY-Central and hunted down their latitude and longitude coordinates using their IP addresses and various online ip-to-latlong servers. I threw all this data into a free Flash mapping tool (DIY Map) and out came a map of where in the world are the MOBY services.
I came across a page entitled ‘Ten Usability Heuristics’ today which outlines ten fundamental concepts that should be borne in mind when designing any thing that people interact with. These are particularly relevant to bioinformatics tools and websites where the data being presented is complicated enough, the user interface should enhance not further obscure the content.
I have put up a prototype of a simple Gene Ontology annotation tool. The tool is envisaged as a simple way to enter new GO annotations for a gene product and save those annotations in a database (MySQL).
I’ve put together a simple shell script to automate the process of keeping a local copy of the Gene Ontology terms up to date on a daily basis. It essentially mimics the download and install procedure on the GO Dev site.
