User: Christophe Dessimoz

Reputation:
320
Status:
Trusted
Location:
University College London
Website:
http://lab.dessimoz.org/
Twitter:
cdessimoz
Scholar ID:
Google Scholar Page
Last seen:
3 weeks, 3 days ago
Joined:
3 years, 3 months ago
Email:
c*********@ucl.ac.uk

Posts by Christophe Dessimoz

<prev • 24 results • page 1 of 3 • next >
0
votes
1
answer
168
views
1
answers
Comment: C: [OMA] When input sequence data are DNA, OMA conversion in AA ?
... We recommend using protein sequences, because we have done much more benchmarking on this type of data. There are practical advantages too: public genomes exported from OMA, including precomputed all-against-all, are only available at for protein sequences. By contrast, the DNA-level comparison supp ...
written 5 weeks ago by Christophe Dessimoz320
1
vote
1
answer
168
views
1
answers
Answer: A: [OMA] When input sequence data are DNA, OMA conversion in AA ?
... No, OMA does not translate DNA into AA. While it's true that Gonnet PAM matrices were defined on amino-acid, it's also possible to derive empirical scoring matrices from DNA in the same way. In OMA standalone, if the input data type is DNA, we use such matrices to perform alignment and evolutionary ...
written 6 weeks ago by Christophe Dessimoz320
0
votes
0
answers
323
views
0
answers
Job: Faculty positions in Computational Biology and Human Genetics at UCL
... **Lecturer/Senior Lecturer in Computational Biology & Lecturer/Senior Lecturer in Human Genetics** The [UCL Genetics Institute (UGI)][1] is an internationally leading centre for research and teaching in genetics and genomics. It is part of the Research Department of [Genetics, Evolution and Env ...
jobs europe london faculty job rna-seq written 9 weeks ago by Christophe Dessimoz320
12
votes
0
answers
190
views
0
answers
News: The Gene Ontology Handbook (open access)
... Have you ever used the GO? Of course you have! Every bioinformatician worth their salt has on occasions been guilty of performing one GO enrichment analysis or ten. And in so doing, did you have the nagging feeling that you did not quite fully understand the ins and outs of what you were doing? If ...
news training handbook go tutorial written 9 weeks ago by Christophe Dessimoz320
1
vote
2
answers
191
views
2
answers
Answer: A: [OMA] If my jobs stop (SGE) will the results be conserved (AllvsAll) in the cach
... The work chunks that have finished computing will be reused—it does not matter what job scheduler you used or if you even used one in the first place. These are the gzipped files in the Cache/AllAll folder. However, if the SGE run was interrupted, there might be some chunks that are incomplete and ...
written 11 weeks ago by Christophe Dessimoz320
0
votes
1
answer
195
views
1
answers
Answer: A: Is it possible to run the GETHOGs algorithm on already computed pairs of ortholo
... If you don't want to run OMA standalone, you can download all HOGs from the current OMA release—the file ("Hierarchical Orthologous Groups") is linked from this page: http://omabrowser.org/oma/current/ To parse this file and retrieve HOGs defined at the various levels, I recommend that you use this ...
written 12 weeks ago by Christophe Dessimoz320
3
votes
0
answers
622
views
0
answers
Job: Over 10 computational biology PhD and postdoc positions in Lausanne, London. Stockholm & Ghent (updated)
... Our lab has several open positions, and so do collaborators and colleagues across Switzerland, the UK, and Europe. **Bioinformatic openings associated with our lab** - [Two PhD positions in big data comparative genomics based at the University of Lausanne][1] - [One 3-year postdoc position in ...
postdoc phd semantic web big data job written 3 months ago by Christophe Dessimoz320
0
votes
1
answer
339
views
1
answers
Answer: A: How to make ortholog table with Reciprocal Best Hit blast (Python?) ?
... It may be more straightforward to infer your orthologs using our software package OMA standalone (http://omabrowser.org), which takes your two fasta files as input and produces all pairwise relationships. If you want to combine your two genomes with publicly available data, you can also export pre ...
written 4 months ago by Christophe Dessimoz320
0
votes
2
answers
264
views
2
answers
Answer: A: OMA, GOdata/Wget error
... Please make sure that you are using the latest version (currently 1.1.1), which also attempts to use curl if wget in unavailable. Also, with this latest version, if you don't need function annotations, you can bypass the problem altogether. Just add the following line to your parameter file: Do ...
written 4 months ago by Christophe Dessimoz320
2
votes
0
answers
665
views
0
answers
Job: Postdoctoral associate positions at the University of Lausanne, Switzerland (open call)
... Location: Lausanne, Switzerland Institution: University of Lausanne & Swiss Institute of Bioinformatics Start date: 1 January 2017 or later We are looking for postdocs to participate in the vibrant community of computational evolutionary biology at University of Lausanne and Swiss Institute o ...
postdoc switzerland job written 7 months ago by Christophe Dessimoz320

Latest awards to Christophe Dessimoz

Appreciated 9 weeks ago, created a post with more than 5 votes. For The Gene Ontology Handbook (open access)
Scholar 12 months ago, created an answer that has been accepted. For A: Details of OMA Running Process - OMA standalone
Popular Question 14 months ago, created a question with more than 1,000 views. For (Senior) Research Associate In Bioinformatics And Comparative Genomics At Ucl, London
Scholar 14 months ago, created an answer that has been accepted. For A: Details of OMA Running Process - OMA standalone
Teacher 14 months ago, created an answer with at least 3 up-votes. For A: Details of OMA Running Process - OMA standalone
Scholar 16 months ago, created an answer that has been accepted. For A: Details of OMA Running Process - OMA standalone
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: Details of OMA Running Process - OMA standalone

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 823 users visited in the last hour