[adegenet-commits] r1214 - www
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Thu Jul 30 21:46:20 CEST 2015
Author: jombart
Date: 2015-07-30 21:46:19 +0200 (Thu, 30 Jul 2015)
New Revision: 1214
Modified:
www/acceuil.html
Log:
updating website for new workshop
Modified: www/acceuil.html
===================================================================
--- www/acceuil.html 2015-07-30 19:41:42 UTC (rev 1213)
+++ www/acceuil.html 2015-07-30 19:46:19 UTC (rev 1214)
@@ -26,6 +26,7 @@
<br>
<div style="text-align: left;"> <span style="font-weight: bold;">NOTE:
+
this website will soon be replaced by a new github page.
Meanwhile, up-to-date information on adegenet can be found on
github:<br>
@@ -40,17 +41,10 @@
of tools ranging from multivariate methods to spatial genetics
and genome-wise SNP data analysis. <br>
<br>
- It is developed on <a
+ It is developed on <a target="_top"
href="https://github.com/thibautjombart/adegenet">Github</a>
- by <a href="http://sites.google.com/site/thibautjombart/">Thibaut
-
-
-
-
-
-
-
-
+ by <a target="_top"
+ href="http://sites.google.com/site/thibautjombart/">Thibaut
Jombart</a>, Caitlin Collins, Zhian N Kamvar, Roman Lustrik,
Ismail Ahmed, Federico Calboli, Anne Cori, Tobias Erik Reiners,
and Péter Sólymos, and officially released on CRAN periodically.
@@ -84,6 +78,7 @@
+
the bublisher's website</a>]<br>
</li>
</ul>
@@ -114,6 +109,7 @@
+
DNA sequences</span> to <span style="font-weight:
bold;">SNPs</span></li>
<li> data import from <span style="font-weight: bold;">aligned
@@ -123,14 +119,16 @@
+
protein sequences</span> to polymorphic sites </li>
<li> data <span style="font-weight: bold;">export</span> to
the R packages genetics, hierfstat, LDheatmap</li>
<li> handling of <span style="font-weight: bold;">different
- levels of ploidy</span></li>
+ levels of ploidy<br>
+ </span></li>
<li>handling of <span style="font-weight: bold;">codominant
- </span>markersand<span style="font-weight: bold;">presence/absence</span>
- data</li>
+ </span>markers and<span style="font-weight: bold;">
+ presence/absence</span> data</li>
<li>basic and advanced <span style="font-weight: bold;">data
@@ -143,30 +141,14 @@
+
manipulation</span></li>
<li> basic <span style="font-weight: bold;">data
information </span>(heterozygosity, numbers of alleles,
sample sizes, ...)</li>
- <li> <span style="font-weight: bold;">HWE</span> and <span
- style="font-weight: bold;">G-statistic</span> <span
- style="font-weight: bold;">tests</span>, F statistics
- implemented for adegenet objects</li>
<li> computation of <span style="font-weight: bold;">genetic</span>
<span style="font-weight: bold;">distances</span></li>
- <li>computation of <span style="font-weight: bold;">pairwise
-
-
-
-
-
-
-
-
-
-
-
- Fst </span></li>
- <li> simulation of <span style="font-weight: bold;">hybridization</span></li>
+ <li>simulation of <span style="font-weight: bold;">hybridization</span></li>
<li>methods for <span style="font-weight: bold;">spatial
genetics: sPCA, </span><span style="font-weight: bold;">tests
@@ -174,22 +156,13 @@
+
for global and local structuring, </span><span
style="font-weight: bold;">Monmonier algorithm</span></li>
<li>the <span style="font-style: italic; font-weight:
- bold;">seqTrack</span><span style="font-weight: bold;">algorithm
-
-
-
-
-
-
-
-
-
-
-
- </span>for reconstructing genealogies of haplotypes</li>
+ bold;">seqTrack</span><span style="font-weight: bold;">
+ algorithm </span>for reconstructing genealogies of
+ haplotypes</li>
<li>simulation of <span style="font-weight: bold;">genealogies
@@ -202,6 +175,7 @@
+
of haplotypes</span></li>
<li> Discriminant Analysis of Principal Components (<span
style="font-weight: bold;">DAPC</span>)</li>
@@ -212,13 +186,10 @@
<li> identification of mutations between pairs of sequences
</li>
<li><b>visualization of SNPs density</b> and test for the
- randomness of their distribution<img style="width: 80px;
- height: 37px;" alt="" src="images/new.png" height="37"
- width="80"></li>
+ randomness of their distribution</li>
<li><b>web interface for DAPC</b>, including feature
- selection and cross validation <img style="width: 80px;
- height: 37px;" alt="" src="images/new.png" height="37"
- width="80"><br>
+ selection and cross validation </li>
+ <li>and more...<br>
</li>
</ul>
</div>
@@ -227,76 +198,7 @@
style="text-decoration: underline; font-weight: bold;">:</span>
Thibaut Jombart (<a target="_new"
href="http://sites.google.com/site/thibautjombart/">website</a>)<br>
- <span style="text-decoration: underline;">Developers:</span>
- Thibaut Jombart (<a href="mailto:tjombart at imperial.ac.uk">tjombart at imperial.ac.uk</a>),
-Caitlin
-
-
-
-
-
-
- Collins (<a href="mailto:caitiecollins17 at gmail.com">caitiecollins at gmail.com</a>),
-
-
-
-
-
-
-
-
-
-
-
- Ismaïl Ahmed (<a href="mailto:ismail.ahmed at inserm.fr">ismail.ahmed at inserm.fr</a>),
-
-
-
-
-
-
- Federico Calboli (<a href="mailto:f.calboli at imperial.ac.uk">f.calboli at imperial.ac.uk</a>),
-
-
-
-
-
-
-
-
-
- Anne Cori (<a href="mailto:a.cori at imperial.ac.uk">a.cori at imperial.ac.uk</a>),
-Tobias
-
-
-
-
-
-
-
-
-
-
-
- Erik Reiners (<a href="mailto:Tobias.Reiners at Senckenberg.de">Tobias.Reiners at Senckenberg.de</a>),
-
-
-
-
-
-
-
-
-
-
-
- Péter Sólymos (<a href="mailto:solymos at ualberta.ca">solymos at ualberta.ca</a>)<br>
- <span style="text-decoration: underline;">Contributors
- (datasets/ideas):</span> Christophe Fraser, Katayoun
- Moazami-Goudarzi, Denis Laloë, Francois Balloux, Dominique
- Pontier, Daniel Maillard<span style="font-weight: bold;"><br>
- <br>
- <br style="font-weight: bold;">
+ <span style="font-weight: bold;"><br style="font-weight: bold;">
Suggestions, comments and contributions are most welcome!</span><br>
<br>
<br>
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