[adegenet-commits] r1027 - www
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Fri Aug 10 12:37:25 CEST 2012
Author: jombart
Date: 2012-08-10 12:37:25 +0200 (Fri, 10 Aug 2012)
New Revision: 1027
Modified:
www/contact.html
www/documentation.html
www/news.html
Log:
Changed the search engine.
Modified: www/contact.html
===================================================================
--- www/contact.html 2012-08-07 15:10:01 UTC (rev 1026)
+++ www/contact.html 2012-08-10 10:37:25 UTC (rev 1027)
@@ -34,24 +34,28 @@
- please read the <a style="font-weight: bold;"
href="https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/adegenet-forum">guidelines</a>
before sending a post<br>
-- to search the archives, enter your keywords below:<br>
+- use the search engine:<br>
<center>
<div style="text-align: left;"></div>
+<!-- <form method="get" action="http://www.google.com/search"> -->
+<!-- <div style="text-align: left;"><\!--<TABLE bgcolor="#FFFFFF"><tr><td>-\-> --><!-- <a href="http://www.google.fr"><img -->
+<!-- src="http://www.google.com/logos/Logo_40wht.gif" alt="Google" --><!-- border="0" align="middle"></a><br> -->
+<!-- </div> --><!-- <div style="text-align: left;"><input name="q" size="31" -->
+<!-- maxlength="255" value="Enter keywords here" type="text"><\!--<INPUT TYPE=hidden name="domains" value="adegenet.r-forge.r-project.org" />-\-><input --><!-- name="as_sitesearch" -->
+<!-- value="lists.r-forge.r-project.org/pipermail/adegenet-forum/" --><!-- type="hidden"> <input name="pbil" value="Google search" type="submit"></div> -->
+<!-- </form> -->
<form method="get" action="http://www.google.com/search">
- <div style="text-align: left;"><!--<TABLE bgcolor="#FFFFFF"><tr><td>-->
- <a href="http://www.google.fr"><img
- src="http://www.google.com/logos/Logo_40wht.gif" alt="Google"
- border="0" align="middle"></a><br>
- </div>
<div style="text-align: left;"><input name="q" size="31"
- maxlength="255" value="Enter keywords here" type="text"><!--<INPUT TYPE=hidden name="domains" value="adegenet.r-forge.r-project.org" />--><input
- name="as_sitesearch"
+ maxlength="255" value="Enter keywords here" type="text">
+ <input value="Google Search" type="submit"><input name="sitesearch"
+ value="adegenet.r-forge.r-project.org" type="radio"> adegenet website
+ <input name="sitesearch"
value="lists.r-forge.r-project.org/pipermail/adegenet-forum/"
- type="hidden"> <input name="pbil" value="Google search" type="submit"></div>
+ checked="checked" type="radio"> adegenet-forum archives <br>
+ </div>
</form>
</center>
-- alternatively, you can google keywords
-preceeded with 'adegenet-forum', or <a
+- alternatively, you can <a
href="http://lists.r-forge.r-project.org/pipermail/adegenet-forum/">browse
the
archives</a> of adegenet forum<br>
@@ -66,7 +70,8 @@
of
genetic
markers
-in R, use the <a target="_top"
+in
+R, use the <a target="_top"
href="https://stat.ethz.ch/mailman/listinfo/r-sig-genetics">R-sig-genetics</a>
mailing list.<br>
<br>
@@ -127,7 +132,8 @@
<span style="color: rgb(0, 102, 0);">Error in as.environment(pos) : no
item called "newtable" on the search list</span></font></font><br>
This is because the package '<span style="font-style: italic;">graph</span>',
-on which <span style="font-style: italic;">adegenet</span> depends,
+on
+which <span style="font-style: italic;">adegenet</span> depends,
has been removed from CRAN. You need to install graph from bioconductor
first, and then install adegenet:<br>
<pre>source("http://bioconductor.org/biocLite.R")<br>biocLite("graph")<span
Modified: www/documentation.html
===================================================================
--- www/documentation.html 2012-08-07 15:10:01 UTC (rev 1026)
+++ www/documentation.html 2012-08-10 10:37:25 UTC (rev 1027)
@@ -1,10 +1,10 @@
-<!DOCTYPE html PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN">
<html>
- <head>
- <meta content="text/html; charset=ISO-8859-1"
- http-equiv="content-type">
- <title>documentation</title>
- <script type="text/javascript">
+<head>
+ <meta content="text/html; charset=ISO-8859-1"
+ http-equiv="content-type">
+ <title>documentation</title>
+ <script type="text/javascript">
var _gaq = _gaq || [];
_gaq.push(['_setAccount', 'UA-20083187-1']);
@@ -16,138 +16,122 @@
var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
})();
</script>
- </head>
- <body>
- <br>
- <br>
- <br>
- <div style="margin-left: 40px;">As a <span style="text-decoration:
- underline;"><a href="http://www.r-project.org/" target="_top"><img
- alt="" src="images/R.png" style="border: 0px solid ; width:
- 30px; height: 23px;"></a></span>
- package, each component of adegenet is documented in help pages.
- As a
- starting point, one can type <span style="font-family: monospace;
- font-weight: bold;">?adegenet</span> in
- R to get an overview of package. Other sources of information
- distributed with the package include a manual and vignettes. This
- website also provides other resources such as lectures and
- practicals.<br>
- <br>
- <span style="font-weight: bold; color: rgb(0, 102, 0);">Manuals</span><br>
- - the adegenet <span style="font-weight: bold;">manual</span> (<a
- href="files/adegenet-manual.pdf">pdf</a>), which compiles all
- the
- manpages of the package.<br>
- <br>
- <span style="color: rgb(0, 102, 0); font-weight: bold;">Tutorials
- vignettes </span><br>
- - <a href="files/adegenet-basics.pdf"><span style="font-style:
- italic;">adegenet-basics</span></a>:
- introduction to the package;
- accessible from R by typing <span style="font-family: monospace;
- color: rgb(255, 0, 0);">vignette("adegenet-basics")</span>.<br>
- </div>
- - <a
- href="files/adegenet-spca.pdf"><span style="font-style: italic;">adegenet-spca</span></a>:
- spatial multivariate analysis using adegenet; includes an
- introduction
- to spatial PCA (sPCA);
- accessible from R by typing <span style="font-family: monospace;
- color: rgb(255, 0, 0);">vignette("adegenet-spca")</span>.<br>
- <div style="margin-left: 40px;">- <a href="files/adegenet-dapc.pdf"><span
- style="font-style: italic;">adegenet-dapc</span></a>: analysis
- of the
- genetic structuring of populations;
- includes an introduction to Discriminant Analysis of Principal
- Components (DAPC); accessible from R by typing <span
- style="font-family: monospace; color: rgb(255, 0, 0);">vignette("adegenet-dapc")</span>.<br>
- - <a href="files/adegenet-genomics.pdf"><span style="font-style:
- italic;">adegenet-genomics</span></a>: introduction
- to the handling of genome-wide SNP data using adegenet;
- accessible from R by typing <span style="font-family: monospace;
- color: rgb(255, 0, 0);">vignette("adegenet-genomics")</span>.<br>
- <br>
- <br>
- <span style="font-weight: bold; color: rgb(0, 102, 0);">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>
- <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>
- <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
- 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>
- <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>
- - Imperial College - MSc '<span style="font-style: italic;">Modern
- Epidemiology</span>': <span style="font-weight: bold;">Introduction
- to phylogenetics</span>.<img style="width: 80px; height: 37px;"
- alt="new" src="images/new.png"><br>
- > <a href="files/MSc-intro-phylo.1.0.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>
- <br>
- <span style="font-weight: bold; color: rgb(0, 102, 0);">Miscellaneous<br>
- </span>- <a href="files/worksOnlyInDiploids.txt">worksOnyInDiploids.txt</a>:
- the
- list of <span style="font-weight: bold;">functions</span> working
- <span style="font-weight: bold;">only for diploid</span> genotypes
- <br>
- <br>
- <br>
- Information can also be found from the archives of the <span
- style="font-weight: bold;">adegenet forum</span>; just enter
- your
- keywords below:<br>
- <center>
- <form method="get" action="http://www.google.com/search">
- <div style="text-align: left;"><!--<TABLE bgcolor="#FFFFFF"><tr><td>-->
- <a href="http://www.google.fr/"><img
- src="http://www.google.com/logos/Logo_40wht.gif"
- alt="Google" align="middle" border="0"></a><br>
- </div>
- <div style="text-align: left;"><input name="q" size="31"
- maxlength="255" value="Enter keywords here" type="text"><!--<INPUT TYPE=hidden name="domains" value="adegenet.r-forge.r-project.org" />--><input
- name="as_sitesearch"
- value="lists.r-forge.r-project.org/pipermail/adegenet-forum/"
- type="hidden"> <input name="pbil" value="Google search"
- type="submit"></div>
- </form>
- </center>
- See the '<a href="contact.html">contact</a>' section of this
- website
- for further information about this mailing list.<br>
- <br>
- <span style="text-decoration: underline;"></span><br>
- <span style="color: rgb(255, 0, 0);"></span></div>
- </body>
+</head>
+<body>
+<br>
+<br>
+<br>
+<div style="margin-left: 40px;">As a <span
+ style="text-decoration: underline;"><a href="http://www.r-project.org/"
+ target="_top"><img alt="" src="images/R.png"
+ style="border: 0px solid ; width: 30px; height: 23px;"></a></span>
+package, each component of adegenet is documented in help pages. As a
+starting point, one can type <span
+ style="font-family: monospace; font-weight: bold;">?adegenet</span> in
+R to get an overview of package. Other sources of information
+distributed with the package include a manual and vignettes. This
+website also provides other resources such as lectures and practicals.<br>
+<br>
+<span style="font-weight: bold; color: rgb(0, 102, 0);">Manuals</span><br>
+- the adegenet <span style="font-weight: bold;">manual</span> (<a
+ href="files/adegenet-manual.pdf">pdf</a>), which compiles all the
+manpages of the package.<br>
+<br>
+<span style="color: rgb(0, 102, 0); font-weight: bold;">Tutorials
+vignettes </span><br>
+- <a href="files/adegenet-basics.pdf"><span style="font-style: italic;">adegenet-basics</span></a>:
+
+introduction to the package; accessible from R by typing <span
+ style="font-family: monospace; color: rgb(255, 0, 0);">vignette("adegenet-basics")</span>.<br>
+</div>
+ - <a
+ href="files/adegenet-spca.pdf"><span style="font-style: italic;">adegenet-spca</span></a>:
+
+spatial multivariate analysis using adegenet; includes an introduction
+to spatial PCA (sPCA); accessible from R by typing <span
+ style="font-family: monospace; color: rgb(255, 0, 0);">vignette("adegenet-spca")</span>.<br>
+<div style="margin-left: 40px;">- <a href="files/adegenet-dapc.pdf"><span
+ style="font-style: italic;">adegenet-dapc</span></a>: analysis of the
+genetic structuring of populations; includes an introduction to
+Discriminant Analysis of Principal Components (DAPC); accessible from R
+by typing <span style="font-family: monospace; color: rgb(255, 0, 0);">vignette("adegenet-dapc")</span>.<br>
+- <a href="files/adegenet-genomics.pdf"><span
+ style="font-style: italic;">adegenet-genomics</span></a>: introduction
+to the handling of genome-wide SNP data using adegenet; accessible from
+R by typing <span
+ style="font-family: monospace; color: rgb(255, 0, 0);">vignette("adegenet-genomics")</span>.<br>
+<br>
+ <br>
+<span style="font-weight: bold; color: rgb(0, 102, 0);">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>
+<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>
+<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
+
+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>
+<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>
+- Imperial College - MSc '<span style="font-style: italic;">Modern
+Epidemiology</span>': <span style="font-weight: bold;">Introduction to
+phylogenetics</span>.<br>
+ > <a href="files/MSc-intro-phylo.1.0.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>
+<br>
+<span style="font-weight: bold; color: rgb(0, 102, 0);">Search engine </span><img
+ style="width: 80px; height: 37px;" alt="new" src="images/new.png"><br>
+Use it to make a research on adegenet <span style="font-weight: bold;">website</span>
+or <span style="font-weight: bold;">forum's archives</span>:<br>
+<br>
+<input name="q" size="31" maxlength="255" value="Enter keywords here"
+ type="text"><input value="Google Search" type="submit">
+<input name="sitesearch" value="adegenet.r-forge.r-project.org"
+ type="radio"> adegenet website
+<input name="sitesearch"
+ value="lists.r-forge.r-project.org/pipermail/adegenet-forum/"
+ checked="checked" type="radio"> adegenet-forum archives <br>
+<br>
+See the '<a href="contact.html">contact</a>' section of this website
+for further information mailing lists.<br>
+<br>
+<br>
+<span style="font-weight: bold; color: rgb(0, 102, 0);">Miscellaneous<br>
+</span>- <a href="files/worksOnlyInDiploids.txt">worksOnyInDiploids.txt</a>:
+
+the list of <span style="font-weight: bold;">functions</span> working <span
+ style="font-weight: bold;">only for diploid</span> genotypes <br>
+<br>
+<br>
+<span style="font-weight: bold; color: rgb(0, 102, 0);"></span><br>
+<span style="text-decoration: underline;"></span><br>
+<span style="color: rgb(255, 0, 0);"></span></div>
+</body>
</html>
Modified: www/news.html
===================================================================
--- www/news.html 2012-08-07 15:10:01 UTC (rev 1026)
+++ www/news.html 2012-08-10 10:37:25 UTC (rev 1027)
@@ -34,7 +34,7 @@
<span style="font-weight: bold;"><big>Today</big> </span><span
style="font-weight: bold;"></span><span style="font-weight: bold;"></span><br>
<span style="font-weight: bold;"></span>Current stable version of <span
- style="color: rgb(255, 0, 0);">adegenet is 1.3-4 </span>for R.2.15.0.<br>
+ style="color: rgb(255, 0, 0);">adegenet is 1.3-4 </span>for R.2.15.1.<br>
You can install the devel version from <a
href="https://r-forge.r-project.org/scm/?group_id=120">R-Forge</a>.<br>
See the current <a
@@ -42,22 +42,31 @@
for a list of all modifications.<br>
<br>
<br>
-<span style="font-weight: bold;">23/01/2012 </span><span
+<span style="font-weight: bold;">10/08/2012 </span><span
style="font-weight: bold;"></span><img
style="width: 80px; height: 37px;" alt="" src="images/new.png"><br>
+The search engines of the website have been improved to allow for
+different types of search and to fix issues occuring with some browsers.<span
+ style="font-weight: bold;"><br>
+<br>
+<br>
+23/01/2012 </span><span style="font-weight: bold;"></span><br>
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.3-4</span>)
has
-been released for R-2.14.1!</big> The package has undergone some
+been
+released for R-2.14.1!</big> The package has undergone some
internal changes in the documentation which should make no difference
to users, except for a drastic reduction in <span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">download
and
-installed size (respectively 4-5MB and 6-7MB). Many examples have
+installed
+size (respectively 4-5MB and 6-7MB). Many examples have
been 'inactivated' to comply with CRAN check runtime policy, meaning
these won't be run by '<span style="font-family: monospace;">example(myFunction)</span>'
anymore,
-but will still be available in the documentation. See the </span></span><span
+but
+will still be available in the documentation. See the </span></span><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><a
href="http://cran.r-project.org/web/packages/adegenet/ChangeLog">ChangeLog</a><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><span
@@ -70,7 +79,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.3-3</span>)
has
-been released for R-2.14.1!</big> Just in time for Christmas, ain't
+been
+released for R-2.14.1!</big> Just in time for Christmas, ain't
that nice? This release includes a brand new version of <span
style="color: rgb(255, 0, 0); font-family: monospace;">propShared</span>
which fixes an important bug, and now allows for any ploidy level while
@@ -89,14 +99,16 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.3-2</span>)
has
-been released for R-2.14.0!</big> This minor release fixes some
+been
+released for R-2.14.0!</big> This minor release fixes some
issues in the detection of the number of cores occuring on some
platforms, as well as a few fixes in manpages. Function <span
style="font-family: monospace; color: rgb(255, 0, 0);">fstat</span> is
now gone for good as <span style="font-style: italic;">hierfstat </span>package
seems
-to be gone for good from CRAN, but the documentation shows how to
+to
+be gone for good from CRAN, but the documentation shows how to
use <span style="color: rgb(255, 0, 0); font-family: monospace;">Fst</span>
from the <span style="font-style: italic;">pegas </span>package
instead. <span style="color: rgb(255, 0, 0);"><span
@@ -113,7 +125,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.3-1</span>)
has
-been released for R-2.13.1!</big> Less is more: this new release is
+been
+released for R-2.13.1!</big> Less is more: this new release is
much smaller in size than 1.3-0, while containing the same material. It
also fixes a few minor issues in documentation and in the legend of
dapc scatterplots. <span style="color: rgb(255, 0, 0);"><span
@@ -130,7 +143,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.3-0</span>)
has
-been released for R-2.13.0!</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.13.0!</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This new major release implements new classes and methods for the
handling and analysis of genome-wide SNP data, along with several
@@ -168,7 +182,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-8</span>)
has
-been released for R-2.12.0!</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.12.0!</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This release </span></span><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">fixes a bug in exports from adegenet to
@@ -176,8 +191,8 @@
style="color: rgb(255, 0, 0); font-family: monospace;">genind2hierfstat</span>),
which
-lead to wrong <span
- style="font-family: monospace; color: rgb(255, 0, 0);">fstat</span>
+lead
+to wrong <span style="font-family: monospace; color: rgb(255, 0, 0);">fstat</span>
computations in some cases. See the </span></span><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><a
href="http://cran.r-project.org/web/packages/adegenet/ChangeLog">ChangeLog</a><span
@@ -191,7 +206,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-7</span>)
has
-been released for R-2.12.0!</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.12.0!</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This release includes the stable implementation of the <span
style="font-style: italic;">Discriminant Analysis of Principal
@@ -213,7 +229,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-6</span>)
has
-been released for R-2.11.1!</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.11.1!</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This release adds the computation of pairwise Fst (</span></span><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"></span></span><span
@@ -244,7 +261,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-5</span>)
has
-been released for R-2.11.1!</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.11.1!</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This release includes a stable implementation of the <span
style="font-style: italic;">SeqTrack </span>algorithm </span></span><span
@@ -285,7 +303,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-4</span>)
has
-been released for R-2.10.1 !</big><span style="color: rgb(255, 0, 0);"><span
+been
+released for R-2.10.1 !</big><span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);">
This release corrects a few issues and bugs from previous version, and
includes new material currently under review in scientific journals.
@@ -315,7 +334,8 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-3</span>)
has
-been released for R.2.8.1 !</big><br>
+been
+released for R.2.8.1 !</big><br>
This is a important<span style="color: rgb(255, 0, 0);"><span
style="color: rgb(0, 0, 0);"> release, including some significant
improvements (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
@@ -332,7 +352,8 @@
style="color: rgb(255, 0, 0); font-family: monospace;">DNAbin2genind</span>.This
time,
-the tutorial has been updated at the same time as the package
+the
+tutorial has been updated at the same time as the package
release!<br>
<br>
<br>
@@ -341,30 +362,34 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-2</span>)
has
-been released for R.2.8.0 !</big><br>
+been
+released for R.2.8.0 !</big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
new,
-big release implements many new things and corrects a few bugs
+big
+release implements many new things and corrects a few bugs
(see </span></span><a href="files/ChangeLog">ChangeLog</a><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
file). Amongst the biggest news, <span style="font-weight: bold;">several
levels
-of ploidy</span> are now handled throughout the package, apart
+of
+ploidy</span> are now handled throughout the package, apart
from a few exceptions. New graphics are available for multivariate
methods: the <span
style="font-family: monospace; color: rgb(255, 0, 0);">colorplot</span>,
which
-can represent genetic diversity using RGB scale, and a <span
+can
+represent genetic diversity using RGB scale, and a <span
style="font-family: monospace; color: rgb(255, 0, 0);">loadingplot</span>,
which
-can be used to assess the most structuring alleles and loci in an
+can
+be used to assess the most structuring alleles and loci in an
analysis. A new georeferenced genetic dataset is also available
(dataset <span style="color: rgb(255, 0, 0); font-family: monospace;">rupica</span>).
-
And...
<a href="files/ChangeLog">several other things</a>!<br>
</span></span><br>
@@ -374,11 +399,13 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-1</span>)
has
-been released for R.2.7.1 !</big><br>
+been
+released for R.2.7.1 !</big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
new
-release corrects a few bugs arising in version 1.2-0 (see </span></span><a
+release
+corrects a few bugs arising in version 1.2-0 (see </span></span><a
href="files/ChangeLog">ChangeLog</a><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
file), especially an issue with the detection of NAs. Documentation was
@@ -391,11 +418,13 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.2-0</span>)
has
-been released for R.2.7.1 !</big><br>
+been
+released for R.2.7.1 !</big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
major
-release implements various levels of ploidy and adds some new
+release
+implements various levels of ploidy and adds some new
features (see </span></span><a href="files/ChangeLog">ChangeLog</a><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
file):<br>
@@ -424,11 +453,13 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.1-2</span>)
has
-been released for R.2.7.0 !</big><br>
+been
+released for R.2.7.0 !</big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
release
-corrects a few bugs and adds some new features (see </span></span><a
+corrects
+a few bugs and adds some new features (see </span></span><a
href="files/ChangeLog">ChangeLog</a><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">
file):<br>
@@ -460,7 +491,8 @@
style="font-family: monospace; color: rgb(255, 0, 0);">propShared</span>'
is
-available from the devel version of adegenet. It computes the <span
+available
+from the devel version of adegenet. It computes the <span
style="color: rgb(255, 0, 0);">proportion of shared alleles</span>
among a set of genotypes.<br>
<br>
@@ -470,11 +502,13 @@
<big>New adegenet version (<span style="color: rgb(255, 0, 0);">1.1-1</span>)
has
-been released for R.2.6.2 !</big><br>
+been
+released for R.2.6.2 !</big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
release
-corrects a few bugs and adds some new features:<br>
+corrects
+a few bugs and adds some new features:<br>
- <span style="font-family: monospace;"></span></span></span><span
style="text-decoration: underline;">I/O:</span> <span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);"><span
@@ -497,7 +531,8 @@
style="font-family: monospace; color: rgb(255, 0, 0);">bd.length</span>).
The
-function <span style="font-family: monospace; color: rgb(255, 0, 0);">chooseCN</span>
+function
+<span style="font-family: monospace; color: rgb(255, 0, 0);">chooseCN</span>
has a new option to return a list of spatial weights defined as the
inverse of spatial distances, at a given exponent.<br>
- <span style="text-decoration: underline;">F
@@ -523,11 +558,13 @@
</span><small>New adegenet version (<span style="color: rgb(255, 0, 0);">1.1-0</span>)
has
-been released for R.2.6.2.</small></big><br>
+been
+released for R.2.6.2.</small></big><br>
<span style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">This
totally
-new version includes:<br>
+new
+version includes:<br>
- <span style="text-decoration: underline;">Data
representation:</span> </span></span><span
style="color: rgb(255, 0, 0);"><span style="color: rgb(0, 0, 0);">S4
@@ -576,7 +613,8 @@
style="font-family: monospace; color: rgb(255, 0, 0);">optimize.monmonier</span>)
and
-adds the following elements:<br>
+adds
+the following elements:<br>
- <span style="font-family: monospace;"><span
style="color: rgb(255, 0, 0);">adegenetWeb</span> </span>is a simple
function opening the adegenet website in the default web browser.<br>
@@ -588,7 +626,8 @@
documentation was improved <span style="color: rgb(255, 0, 0);"></span>by
adding
-a genetic example, using <span
+a
+genetic example, using <span
style="font-family: monospace; color: rgb(255, 0, 0);">sim2pop</span><span
style="color: rgb(255, 0, 0);"> </span>data.<br>
<span style="font-weight: bold;"><br>
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