Dear evoldir members,

We tried to gather information about courses or trainings on (i) 
phylogenetic reconstructions and (ii) high-throughput sequencing 
techniques. Since it could be of great interest for the community, here 
is the roughly compiled information :

- Summer Schools in the future :

Probably soon :

http://www.nescent.org/courses/

http://www.wellcome.ac.uk/Education-resources/Courses-and-conferences/Advanced-Courses-and-Scientific-Conferences/Advanced-Courses/WTX060194.htm 

http://www.zoologie.uni-rostock.de/whs-xxxii/

http://www.molecularevolution.org/

I also remember very well the 1999 course on cladistics by the 
Willi-Henning Society (http://www.cladistics.org/workshops.html), which 
was still performed in 2011 with a few of the original teachers.

Czeck Republic :

The courses in Cesky Krumlov would be ideal for you. There is a week on 
Genomics and a week on molecular Evolution. Unfortunately the course is 
running right now and nearly finished so the next one won't be likely 
until January 2014. The course page is here: http://evomics.org/ and all 
the course notes are still there so in theory you could work through 
these yourself if you wanted.

highly recommended!!!

USA :
For phylogenetic reconstruction I suggest the course in Woods Hole 
Marine Biological Laboratory (see: 
http://hermes.mbl.edu/education/courses/special_topics/mole.html)

In France :

(Bioconductor) : 
http://sfc.univ-rennes1.fr/informatique/SC_introduction-R-bioconductor.htm

If you speak french there is an awesome course on phylogeny in the 
university of Montpellier 2, by Emmanuel Douzery.

http://abacus.gene.ucl.ac.uk/CoME/

In Belgium : 
http://www.vib.be/en/training/research-training/courses/Pages/default.aspx?VIBCourseCategory=Bioinformatics%20and%20Statistics

Every two years, normally, a great workshop is organized both in the USA 
and in Europe (for example in Liège, Belgium) : Summer Institute in 
Statistical Genetics. Information can be found for the USA ; we do not 
know about Europe. It can be worthy to have a deeper look :

http://www.biostat.washington.edu/node/967

- Past or current online courses/seminars

http://iphylo.org/~rpage/phyloinformatics/course/ 
<http://iphylo.org/%7Erpage/phyloinformatics/course/>

http://www.bioinformatics.org/wiki/Educational_services-> font des cours 
en ligne

http://phyloseminar.org/recorded.html

I had an excellent experience as participant of the first S Star online 
course in 2001, which went up to a 6th Edition in 2005, but probably no 
further : http://s-star.asti.dost.gov.ph/course.html

In response to your question on EvolDir, Simon Ho (University of Sydney) 
and Rob Lanfear run a short introductory workshop to phylogenetic 
inference. Simon put most of it together. It covers basic theory, and 
has practical components for alignment, maximum likelihood, and Bayesian 
methods using a variety of software (Geneious, RAxML, PartitionFinder, 
and BEAST). It's suitable for biologists with little or no experience of 
phylogenetics, and can also be useful for people who are comfortable 
with the methods to brush up on their skills, and the latest software. 
Info from one of the courses is here:

http://www.robertlanfear.com/phyloworkshop/

Info for other iterations of the course can be found on Simon's faculty 
website:

http://sydney.edu.au/science/biology/meep/events/workshop.shtml

Best,

Gwennaël

Le 25/01/2013 14:46, Gwennaël Bataille a écrit :
       
        Dear all,
       
        We are highly interested in gathering information about courses or 
        trainings on (i) phylogenetic reconstructions and (ii) high-throughput 
        sequencing techniques.
       
        If you know one, would you please be so kind to let us know ? We are 
        notably interested in answering the following aspects :
       
        - Regarding phylogenetics :
        i) learn the general methods of tree reconstruction
        ii) get specific guidelines for methods choice in tree reconstruction
        iii) how to produce phylogenetic trees from biological material ?
        iv) how to use phylogenetic trees to analyse patterns of geographic 
        distribution, or phenotypic evolution?
        v) learn to use specific softwares
        vi) ...
       
        - Regarding high throughput sequencing :
        i) learn how to choose the best general methods for one's question
        ii) learn to use specific programs or applications
        iii) how to design the biological experiment at best for the 
        appropriate methodology ?
        iv) ...
       
        Any suggestion would be strongly appreciated. Thank you very much in 
        advance !
       
        Best regards,
       
        Gwennaël Bataille, on behalf of Professor Caroline Nieberding
       
       
        < gwennael.bataille@uclouvain.be >
       
       

Gwennaël Bataille <gwennael.bataille@uclouvain.be>