User: Christophe Dessimoz
Christophe Dessimoz • 570
- Reputation:
- 570
- Status:
- Trusted
- Location:
- University College London
- Website:
- http://lab.dessimoz.org/
- Twitter:
- cdessimoz
- Scholar ID:
- Google Scholar Page
- Last seen:
- 5 days, 5 hours ago
- Joined:
- 5 years, 10 months ago
- Email:
- c*********@ucl.ac.uk
Posts by Christophe Dessimoz
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... You can use OMA for this. If your genomes are in OMA, you can use the pairwise orthology function (https://omabrowser.org/oma/genomePW/).
In your case, since Xenopus Laevis is not yet in OMA, you could use [OMA standalone](http://omabrowser.org/standalone), which will produce pairwise ortholog file ...
written 8 days ago by
Christophe Dessimoz • 570
• updated
8 days ago by
RamRS ♦ 24k
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... 15 Fully funded PhD studentships in Quantitative Biology
========================================================
![flyer][1]
The advent of large-throughput data is transforming life sciences into an increasingly quantitative discipline. The University of Lausanne (Switzerland) is at the forefront ...
written 8 days ago by
Christophe Dessimoz • 570
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... Two postdoc positions in comparative evolutionary genomics
- Expected start date: as soon as possible
- Contract length: 1 year, renewable once for 2 years
- Activity rate: 100%
- Workplace: University of Lausanne, Génopode, 1015 Lausanne
The groups of Profs Christophe Dessimoz and Robert Wat ...
written 3 months ago by
Christophe Dessimoz • 570
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Job:
Postdoctoral associate in evolutionary computational biology (Dessimoz lab, Lausanne, Switzerland)
... Postdoctoral associate in evolutionary computational biology
====
* Expected start date: 01.09.2019 or to be agreed
* Contract length: 1 year, renewable 2 x 2 years, up to 5 years
* Activity rate: 100%
* Workplace: University of Lausanne, Génopode, 1015 Lausanne
**The opportunity**
The Dessimoz L ...
written 5 months ago by
Christophe Dessimoz • 570
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... OMA standalone relies on the shell utility "mktemp", which should create a temporary file that is writable for the process, but somehow this seems to be failing in your system. This might have to do with how your job scheduler is configured on your cluster.
Could you try to run a simple script whic ...
written 6 months ago by
Christophe Dessimoz • 570
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2
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... Thanks for reporting this problem. It indeed appears that the Gene Ontology consortium website was recently updated and the URL has changed. We will fix this and do a new release soon. Meanwhile, if you (or anyone else) is affected, here is a fix:
Locate the "darwinlib" directory. If you are runnin ...
written 7 months ago by
Christophe Dessimoz • 570
-1
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1
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185
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... There are several options. One way is to use the REST API. If you use e.g. P53_RAT as an input sequence:
https://omabrowser.org/api/hog/P53_RAT/?level=root
You can see that the level is Chordata (in the current Dec 2018 release).
If you use Python, you can use the omadb package
$ pip ins ...
written 7 months ago by
Christophe Dessimoz • 570
0
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2
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... https://omabrowser.org/oma/release/ ...
written 8 months ago by
Christophe Dessimoz • 570
1
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1
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... The documentation of pyHam can be accessed here: https://github.com/DessimozLab/pyham
There is a tutorial here: http://lab.dessimoz.org/blog/2017/06/29/pyham
Finally, there is now an Application Note introducing the package here: https://doi.org/10.1093/bioinformatics/bty994 ...
written 9 months ago by
Christophe Dessimoz • 570
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... You can use OMA (http://omabrowser.org) to retrieve orthologs between human and bacteria (or indeed across domains of life in general. ...
written 11 months ago by
Christophe Dessimoz • 570
Latest awards to Christophe Dessimoz
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6 days ago,
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For A: Details of OMA Running Process - OMA standalone
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For Postdoctoral associate in Evolution And Function of lncRNA - University of Lausanne & Swiss Institute of Bioinformatics, Switzerland
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For Postdoctoral associate positions at the University of Lausanne, Switzerland (open call)
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For A: Details of OMA Running Process - OMA standalone
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For Over 10 computational biology PhD and postdoc positions in Lausanne, London. Stockholm & Ghent (updated)
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