The WordPress editor window is somewhat odd if you are writing in text mode but need to scroll down to preview your post. From several blog editors that I have tested now – there is now one that made it onto my desktop. Scribe Fire is an advanced Firefox plugin that can be nicely configured as you can see on this screenshot.
The “powered by” can be switched off Continue reading Fire Scribe
Category Archives: Software
Tonk, Plonk and Plink
I have now used the PLINK software package also for analysing family data. Again it is an excellent program that allows many new views on old data. I could run >20 traits all together on ~1000 SNPs in just a few seconds. There are only a few tweaks that I have already emailed to the author Continue reading Tonk, Plonk and Plink
Castrated data
Nature had some good recommendations —
… there are challenges to making data on individual research participants available to other investigators, every effort should be made to provide researchers with an opportunity to reproduce the reported results and to investigate new hypotheses and methods.
accompanied by a bullet list
* Statement on availability of results and data so that, as far as possible, others can analyse them independently
The new expression paper published 3 days ago, however, ignores that largely Continue reading Castrated data
And now all together
A quick update of my DNA pooling studies: The Affymetrix Genotyping Console 1.0 now includes a parameter CONTRAST Continue reading And now all together
Peer to peer publication
Although not so much appreciated by big companies, peer to peer technologies have a great success in sharing communities. Peer to peer might even work with mobile phones in Africa as shown recently by a Swedish company.
I wonder if peer to peer would also work. Continue reading Peer to peer publication
Genetic databases – the tragedy continues
A new review paper about online genetic databases nicely summarizes the current state of the art (including my own efforts). There are only 13 databases Continue reading Genetic databases – the tragedy continues
Accidentally deleted files
Only a couple of years ago, you could edit your file allocation table and replace all these fancy question marks in ?ecret.doc to undelete your files.
While importing now my holiday pictures from a SD card to Picasa 2, I accidentally Continue reading Accidentally deleted files
Catch you
Some of you may remember my recent post how to secure your laptop. There is now also an excellent way to secure your car, boat, or whatever you like. You even don’t need to be a gadget afficionado Continue reading Catch you
Single use email
It’s quite easy nowadays – install this new Firefox plugin and click “random email”. Read your inbox by clicking “check”. Take care as everything is being lost if you delete cookies!
Any new paper? A video cast how to stay informed
Following a frequent request, here is a short video how to create your own Pubmed news feed. You simply need the Sage plugin for Firefox; then goto to Pubmed, create your personal RSS feed and import this URL into the bookmark category that Sage is looking for. Here is the show: Continue reading Any new paper? A video cast how to stay informed
The world needs only five computers
The history of this quote is difficult to trace. cnet believes it is wrong to attribute it to IBM Chairman Thomas J. Watson. Continue reading The world needs only five computers
Galaxy – a must have
Manipulating large SNP datasets has always been a hassle, a lot of cut & paste, quick & dirty database resorts and no documentation after all. Only by the last week, I learned form the ENCODE papers that there is now a web service that helps with all kind of these tasks. Check out Galaxy — a “must have”.
My linux box
When starting again analysis of pooled DNA samples – this time on the Affymetrix platform – I discovered not only the much improved “Genotyping Console” but also that my earlier Genepool binaries do not work anymore under VMWARE/Ubuntu. I therefore tried Continue reading My linux box
QQ plot
Do you wonder what QQ means? These are quantile – quantile plots that rank observed test statistics against expected test statistics. They allow a visual inspection of overdispersion due to population substructure or other sources of biases.
QQ plots have been recommended earlier, are now frequently used and available in the snpMatrix R package. Yea, yea.
Can we meet on next Tuesday at 2 pm?
Answering this question always takes me 30 seconds – looking for my mobile and doing some pen strokes OR starting Outlook on the laptop and clicking to the desired week (BTW Sunbird is still in version 0.5). Finally I found a solution that gives me a chance for a response within 3 seconds. Continue reading Can we meet on next Tuesday at 2 pm?