[adegenet-commits] r1167 - in www: . files files/montpellier

noreply at r-forge.r-project.org noreply at r-forge.r-project.org
Mon Mar 24 18:48:06 CET 2014 

Author: jombart
Date: 2014-03-24 18:48:06 +0100 (Mon, 24 Mar 2014)
New Revision: 1167

Added:
   www/files/montpellier/
   www/files/montpellier/lecture-MVA.1.0.pdf
   www/files/montpellier/practical-MVAintro.1.0.pdf
Modified:
   www/documentation.html
Log:
added stuff for the first day of Workshop

Modified: www/documentation.html
===================================================================
--- www/documentation.html	2014-03-24 10:46:20 UTC (rev 1166)
+++ www/documentation.html	2014-03-24 17:48:06 UTC (rev 1167)
@@ -53,6 +53,7 @@
 
 
 
+
         engine</a>. <br>
       <br>
       <br>
@@ -68,6 +69,7 @@
 
 
 
+
       which compiles all the manpages of the package.<br>
       <br>
       <br>
@@ -107,22 +109,61 @@
            <br>
       <span style="font-weight: bold; color: rgb(0, 102, 0);"><br>
         Lectures and practicals</span><br>
-      - globaldiv summer school 2009, Piacenza, Italie: <a
-        href="files/globaldiv-TJ.1.3.pdf">talk</a> - <a
-        href="files/globaldiv-PC.1.3.pdf">practical course</a><br>
+      <ul>
+        <li>  globaldiv summer school 2009, Piacenza, Italie: <a
+            href="files/globaldiv-TJ.1.3.pdf">talk</a> - <a
+            href="files/globaldiv-PC.1.3.pdf">practical course<br>
+            <br>
+          </a></li>
+        <li> Master 2 "Ecology, Evolution, Biometry", Lyon, France:
+          <a href="files/talk-E2B.1.0.pdf">talk</a> - <a
+            href="files/TD-E2B.pdf">practical course<br>
+            <br>
+          </a></li>
+        <li>One-week course on Genetic Data Analysis, Bogota, Colombia:</li>
+        <ul>
+          <li><a href="files/day1.1.2.pdf">lecture 1</a>: methodological
+            overview</li>
+          <li><a href="files/day2.1.3.pdf">lecture 2</a>: finding
+            clusters, using cluster information</li>
+          <li><a href="files/day3.1.2.pdf">lecture 3</a>: spatial
+            genetics</li>
+          <li><a href="files/practical-day1.1.2.pdf">practical 1</a> [<a
+              href="files/practical-day1.1.2-allcmd.pdf">version with
+              all commands</a>]</li>
+          <li><a href="files/practical-day2.1.3.pdf">practical 2</a> [<a
+              href="files/practical-day2.1.3-allcmd.pdf">version with
+              all commands</a>]</li>
+          <li><a href="files/practical-day3.1.2.pdf">practical 3</a> </li>
+        </ul>
+      </ul>
+      <ul>
+        <li>MRC methodological session: Introduction to phylogenetics:</li>
+        <ul>
+          <li><a href="files/MRCsession2-talk.1.2.pdf">slides</a></li>
+          <li><a href="files/MRC-session2-tuto.1.3.pdf">practical</a></li>
+          <li>data (<a href="files/usflu.fasta">DNA sequences</a>, <a
+              href="files/usflu.annot.csv">annotations</a>)<br>
+          </li>
+        </ul>
+      </ul>
       <br>
-      - Master 2 "Ecology, Evolution, Biometry", Lyon, France: <a
-        href="files/talk-E2B.1.0.pdf">talk</a> - <a
-        href="files/TD-E2B.pdf">practical course</a><br>
+      <ul>
+        <li> RAPID-NGS workshop, Münster (March 2013) - <span
+            style="font-weight: bold;">Outbreak analysis using <span
+              style="font-style: italic;">ape </span>and</span> <span
+            style="font-weight: bold;"><span style="font-style: italic;">adegenet</span></span></li>
+        <ul>
+          <li><a href="files/seqTrack-practical.1.3.pdf">practical</a></li>
+          <li>data (<a href="files/fakeOutbreak/cases.csv">cases.csv</a>,
+            <a href="files/fakeOutbreak/alignment.fa">alignment.fa</a>,
+            <a href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
+          </li>
+        </ul>
+      </ul>
       <br>
-      - One-week course on Genetic Data Analysis, Bogota, Colombia: <br>
-          > <a href="files/day1.1.2.pdf">lecture 1</a>:
-      methodological overview<br>
-          > <a href="files/day2.1.3.pdf">lecture 2</a>:
-      finding clusters, using cluster information<br>
-          > <a href="files/day3.1.2.pdf">lecture 3</a>:
-      spatial genetics<br>
-          > <a href="files/practical-day1.1.2.pdf">practical
+      <ul>
+        <li>Imperial College - Master <span style="font-style: italic;">Modern
 
 
 
@@ -142,70 +183,19 @@
 
 
 
-        1</a> [<a href="files/practical-day1.1.2-allcmd.pdf">version
-        with all commands</a>]<br>
-          > <a href="files/practical-day2.1.3.pdf">practical
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-        2</a> [<a href="files/practical-day2.1.3-allcmd.pdf">version
-        with all commands</a>]<br>
-          > <a href="files/practical-day3.1.2.pdf">practical
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-
-        3</a><br>
+            Epidemiology</span> / <i>Public Health</i>: <span
+            style="font-weight: bold;">Introduction to phylogenetics</span>
+          (last updated on the 15/13/2013)</li>
+        <ul>
+          <li><a href="files/MSc-intro-phylo.1.1.pdf">practical</a></li>
+          <li>data (<a href="files/usflu.fasta">usflu.fasta</a>, <a
+              href="files/usflu.annot.csv">usflu.annot.csv</a>)<br>
+          </li>
+        </ul>
+      </ul>
       <br>
-      - MRC methodological session: Introduction to phylogenetics:<br>
-          > <a href="files/MRCsession2-talk.1.2.pdf">slides</a><br>
-          > <a href="files/MRC-session2-tuto.1.3.pdf">practical</a><br>
-          > data (<a href="files/usflu.fasta">DNA
-        sequences</a>, <a href="files/usflu.annot.csv">annotations</a>)<br>
-      <br>
-      - RAPID-NGS workshop, Münster (March 2013) - <span
-        style="font-weight: bold;">Outbreak analysis using <span
-          style="font-style: italic;">ape </span>and</span> <span
-        style="font-weight: bold;"><span style="font-style: italic;">adegenet</span></span><br>
-          > <a
-        href="files/seqTrack-practical.1.3.pdf">practical</a><br>
-          > data (<a
-        href="files/fakeOutbreak/cases.csv">cases.csv</a>, <a
-        href="files/fakeOutbreak/alignment.fa">alignment.fa</a>, <a
-        href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
-      <br>
-      - Imperial College - Master <span style="font-style: italic;">Modern
+      <ul>
+        <li>Imperial College - Master <span style="font-style: italic;">Modern
 
 
 
@@ -224,15 +214,22 @@
 
 
 
-        Epidemiology</span> / <i>Public Health</i>: <span
-        style="font-weight: bold;">Introduction to phylogenetics</span>.<br>
-      (last updated on the 15/13/2013)<br>
-          > <a href="files/MSc-intro-phylo.1.1.pdf">practical</a><br>
-          > data (<a href="files/usflu.fasta">usflu.fasta</a>,
-      <a href="files/usflu.annot.csv">usflu.annot.csv</a>)<br>
-      <br>
-      - Imperial College - Master <span style="font-style: italic;">Modern
 
+            Epidemiology</span> / <i>Public Health</i>: <span
+            style="font-weight: bold;">Introduction to multivariate
+            analysis / bacterial GWAS</span> (last updated on the
+          21/13/2013)</li>
+        <ul>
+          <li><a href="files/simGWAS/lecture-MSc-MVA.1.2.pdf">lecture</a></li>
+          <li><a href="files/simGWAS/MSc-GWAS-1.1.pdf">practical</a></li>
+          <li>data (<a href="files/simGWAS/simGWAS.RData">simGWAS.RData</a>)<br>
+          </li>
+        </ul>
+      </ul>
+      <ul>
+        <li>  GenEpi workshop, London (April 2013) - <span
+            style="font-weight: bold;">Outbreak analysis using <span
+              style="font-style: italic;">ape, adegenet,</span> </span><b>and
 
 
 
@@ -245,58 +242,48 @@
 
 
 
+          </b><b><i>outbreaker</i></b></li>
+        <ul>
+          <li><a href="files/GenEpiTalk.1.0.pdf">talk</a></li>
+          <li><a href="files/outbreakPractical.1.3.pdf">practical</a></li>
+          <li>data (<a href="files/fakeOutbreak/cases.csv">cases.csv</a>,
+            <a href="files/fakeOutbreak/alignment.fa">alignment.fa</a>,
+            <a href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
+          </li>
+        </ul>
+      </ul>
+      <ul>
+        <li>  Molecular Outbreak Epidemiology workshop, Stockholm,
+          Sweden (November 2013) - <span style="font-weight: bold;">Outbreak
 
-
-
-
-
-        Epidemiology</span> / <i>Public Health</i>: <span
-        style="font-weight: bold;">Introduction to multivariate analysis
-        / bacterial GWAS</span>.<br>
-      (last updated on the 21/13/2013)<br>
-          > <a
-        href="files/simGWAS/lecture-MSc-MVA.1.2.pdf">lecture</a><br>
-          > <a href="files/simGWAS/MSc-GWAS-1.1.pdf">practical</a><br>
-          > data (<a
-        href="files/simGWAS/simGWAS.RData">simGWAS.RData</a>)<br>
+            analysis using <span style="font-style: italic;">ape,
+              adegenet,</span> </span><b>and </b><b><i>outbreaker</i></b></li>
+        <ul>
+          <li>talk</li>
+          <li><a href="files/outbreakPractical.1.4.pdf">practical</a></li>
+          <li>data (<a href="files/fakeOutbreak/cases.csv">cases.csv</a>,
+            <a href="files/fakeOutbreak/alignment.fa">alignment.fa</a>,
+            <a href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
+          </li>
+        </ul>
+      </ul>
+      <ul>
+        <li>Workshop "Phylogenetics and population genetics using R",
+          Montpellier (March 2014) <img style=" width: 80px; height:
+            37px;" alt="" src="images/new.png"></li>
+        <ul>
+          <li><a href="files/montpellier/lecture-MVA.1.0.pdf">lecture 1</a>:
+            Multivariate analysis of genetic data: an introduction<br>
+          </li>
+          <li><a href="files/montpellier/practical-MVAintro.1.0.pdf">practical
+              1</a>: Population genetics and multivariate analysis of
+            genetic data<br>
+          </li>
+        </ul>
+      </ul>
       <br>
-      - GenEpi workshop, London (April 2013) - <span
-        style="font-weight: bold;">Outbreak analysis using <span
-          style="font-style: italic;">ape, adegenet,</span> </span><b>and
-
-
-
-
-
-
-
-
-
-
-
-      </b><b><i>outbreaker</i></b> <br>
-          > <a href="files/GenEpiTalk.1.0.pdf">talk</a><br>
-          > <a href="files/outbreakPractical.1.3.pdf">practical</a><br>
-          > data (<a
-        href="files/fakeOutbreak/cases.csv">cases.csv</a>, <a
-        href="files/fakeOutbreak/alignment.fa">alignment.fa</a>, <a
-        href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
       <br>
-      - Molecular Outbreak Epidemiology workshop, Stockholm, Sweden
-      (November 2013) - <span style="font-weight: bold;">Outbreak
-        analysis using <span style="font-style: italic;">ape, adegenet,</span>
-      </span><b>and </b><b><i>outbreaker</i></b> <img style=" width:
-        80px; height: 37px;" alt="new" src="images/new.png" height="37"
-        width="80"><br>
-          > talk<br>
-          > <a href="files/outbreakPractical.1.4.pdf">practical</a><br>
-          > data (<a
-        href="files/fakeOutbreak/cases.csv">cases.csv</a>, <a
-        href="files/fakeOutbreak/alignment.fa">alignment.fa</a>, <a
-        href="files/fakeOutbreak/update.csv">update.csv</a>)<br>
       <br>
-      <br>
-      <br>
       <span style="font-weight: bold; color: rgb(0, 102, 0);">Dirty
         hacks useful for teaching</span><br>
       - a small hack for installing R packages on computers without
@@ -316,6 +303,7 @@
 
 
 
+
       <a href="files/hackLib/README">README</a> <br>
       <br>
       <br>

Added: www/files/montpellier/lecture-MVA.1.0.pdf
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[TRUNCATED]

To get the complete diff run:
    svnlook diff /svnroot/adegenet -r 1167

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