[adegenet-commits] r1066 - in www: . files images images/gimp
noreply at r-forge.r-project.org
noreply at r-forge.r-project.org
Wed Jan 30 16:01:48 CET 2013
Author: jombart
Date: 2013-01-30 16:01:47 +0100 (Wed, 30 Jan 2013)
New Revision: 1066
Added:
www/files/adegenet_1.3-6.tar.gz
www/files/adegenet_1.3-6.zip
Modified:
www/acceuil.html
www/download.html
www/files/adegenet-basics.pdf
www/files/adegenet-dapc.pdf
www/files/adegenet-genomics.pdf
www/files/adegenet-spca.pdf
www/images/acceuil.png
www/images/gimp/acceuil.xcf
www/news.html
Log:
Updating website: release 1.3-6
Modified: www/acceuil.html
===================================================================
--- www/acceuil.html 2013-01-29 18:11:00 UTC (rev 1065)
+++ www/acceuil.html 2013-01-30 15:01:47 UTC (rev 1066)
@@ -1,9 +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>adegenet on the web</title>
- <script type="text/javascript">
+ <head>
+ <meta content="text/html; charset=ISO-8859-1"
+ http-equiv="content-type">
+ <title>adegenet on the web</title>
+ <script type="text/javascript">
var _gaq = _gaq || [];
_gaq.push(['_setAccount', 'UA-20083187-1']);
@@ -15,138 +16,160 @@
var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
})();
</script>
-</head>
-
-<body>
-
-<div style="margin-left: 40px; text-align: center;">
-<img style="width: 600px; height: 90px;" alt="title" src="images/title.png"><br>
-<br>
-<br>
-<br>
-
-
-<div style="text-align: left;">
-<span style="font-weight: bold;">adegenet</span> is an <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
-dedicated to the exploratory analysis of genetic data. It implements a set of
-tools ranging from multivariate methods to spatial genetics and genome-wise SNP
-data analysis. <br>
-<br>
-It is developed on <a href="https://r-forge.r-project.org/projects/adegenet/"
-target="_top">R-Forge</a> by <a
-href="http://sites.google.com/site/thibautjombart/">Thibaut Jombart</a>, Ismail
-Ahmed, Anne Cori and Tobias Erik Reiners, and officially released on <a
-href="http://cran.r-project.org">CRAN</a> periodically. <br>
-<br>
-adegenet is described in the following application notes:<br>
-<span style="font-style: italic;"></span>Jombart T. (<span
-style="font-style: italic;"></span>2008)<span
-style="font-weight: bold;"></span>adegenet: a R package for the multivariate
-analysis of genetic markers. <span
-style="font-style: italic;">Bioinformatics</span> <span
-style="font-weight: bold;">24</span>: 1403-1405. doi:
-10.1093/bioinformatics/btn129 [<a
+ </head>
+ <body>
+ <div style="margin-left: 40px; text-align: center;">
+ <img style="width: 600px; height: 90px;" alt="title"
+ src="images/title.png"><br>
+ <br>
+ <br>
+ <br>
+ <div style="text-align: left;">
+ <span style="font-weight: bold;">adegenet</span> is an <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
+ dedicated to the exploratory analysis of genetic data. It
+ implements a set of
+ tools ranging from multivariate methods to spatial genetics and
+ genome-wise SNP
+ data analysis. <br>
+ <br>
+ It is developed on <a
+ href="https://r-forge.r-project.org/projects/adegenet/"
+ target="_top">R-Forge</a> by <a
+ href="http://sites.google.com/site/thibautjombart/">Thibaut
+ Jombart</a>, Ismail
+ Ahmed, Anne Cori, Tobias Erik Reiners, and Péter
+ Sólymos, and officially released on <a
+ href="http://cran.r-project.org">CRAN</a> periodically. <br>
+ <br>
+ adegenet is described in the following application notes:<br>
+ <span style="font-style: italic;"></span>Jombart T. (<span
+ style="font-style: italic;"></span>2008)<span
+ style="font-weight: bold;"></span>adegenet: a R package for
+ the multivariate
+ analysis of genetic markers. <span style="font-style: italic;">Bioinformatics</span>
+ <span style="font-weight: bold;">24</span>: 1403-1405. doi:
+ 10.1093/bioinformatics/btn129 [<a
href="http://bioinformatics.oxfordjournals.org/cgi/reprint/btn129?ijkey=6sqx5BTXCdYtBZz&keytype=ref">link</a>
-to a free pdf]<br>
-<br>
-Jombart T. and Ahmed I. (2011) <span style="font-style: italic;">adegenet
-1.3-1</span>: new tools for the analysis of genome-wide SNP data. <span
-style="font-style: italic;">Bioinformatics</span>. doi:
-10.1093/bioinformatics/btr521 [<a
+ to a free pdf]<br>
+ <br>
+ Jombart T. and Ahmed I. (2011) <span style="font-style:
+ italic;">adegenet
+ 1.3-1</span>: new tools for the analysis of genome-wide SNP
+ data. <span style="font-style: italic;">Bioinformatics</span>.
+ doi:
+ 10.1093/bioinformatics/btr521 [<a
href="http://bioinformatics.oxfordjournals.org/content/early/2011/09/16/bioinformatics.btr521">link
-to the bublisher's website</a>]<br>
-<br>
-<br>
-
-
-<div style="text-align: center;">
-<img style="width: 600px; height: 451px;" alt="" src="images/acceuil.png"><br>
-<br>
-</div>
-
-<div style="text-align: left;">
-
-<div style="text-align: center;">
-<small>sPCA, DAPC, typological coherence of markers, Monmonier algorithm,
-...<br>
-<br>
-</small></div>
-<small><br>
-</small><span style="text-decoration: underline;">Main features of adegenet
-are:</span><br>
-- data representation (<span style="font-weight: bold;">classes</span>)
-suitable for multivariate analysis<br>
-</div>
-- data <span style="font-weight: bold;">import</span> from GENETIX, STRUCTURE,
-Genepop, Fstat, Easypop, or any dataframe of genotypes<br>
-- data import from <span style="font-weight: bold;">aligned DNA
-sequences</span> to <span style="font-weight: bold;">SNPs</span><br>
-- data import from <span style="font-weight: bold;">aligned protein
-sequences</span> to polymorphic sites<span style="font-weight: bold;"></span>
-<br>
-- data <span style="font-weight: bold;">export</span> to the R packages
-genetics, hierfstat, LDheatmap<br>
-- handling of <span style="font-weight: bold;">different levels of ploidy<br>
-</span>- handling of <span style="font-weight: bold;">codominant
-</span>markers<span style="font-weight: bold;"></span>and<span
-style="font-weight: bold;">presence/absence</span> data<span
-style="font-weight: bold;"><br>
-</span>- basic and advanced <span style="font-weight: bold;">data
-manipulation</span><br>
-- basic <span style="font-weight: bold;">data information
-</span>(heterozygosity, numbers of alleles, sample sizes, ...)<br>
-- <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<br>
-- computation of <span style="font-weight: bold;">genetic</span> <span
-style="font-weight: bold;">distances<br>
-</span>- computation of <span style="font-weight: bold;">pairwise Fst
-</span><br>
-- simulation of <span style="font-weight: bold;">hybridization<br>
-</span><span style="font-weight: bold;"></span>- methods for <span
-style="font-weight: bold;">spatial genetics: sPCA, </span><span
-style="font-weight: bold;">tests for global and local structuring, </span><span
-style="font-weight: bold;">Monmonier algorithm<br>
-</span>- the <span
-style="font-style: italic; font-weight: bold;">seqTrack</span><span
-style="font-weight: bold;">algorithm </span>for reconstructing genealogies of
-haplotypes<span style="font-weight: bold;"><br>
-</span>- simulation of <span style="font-weight: bold;">genealogies of
-haplotypes</span><br>
-- Discriminant Analysis of Principal Components (<span
-style="font-weight: bold;">DAPC</span>)<span
-style="font-weight: bold;"></span><br>
-- efficient genome-wise SNP data handling and analysis <br>
-- extraction of SNP data from genomic alignments <br>
-- <span style="font-weight: bold;">graph-based clustering</span> of genomic
-data <img style="width: 80px; height: 37px;" alt="" src="images/new.png"><br>
-<span style="font-weight: bold;"><br>
-<span
-style="text-decoration: underline; font-weight: bold;">Maintainer</span></span><span
-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>), Ismaïl
-Ahmed (<a href="mailto:ismail.ahmed at inserm.fr">ismail.ahmed at inserm.fr</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>)<br>
-<span style="text-decoration: underline;">Contributors
-(functions/datasets/ideas):</span> Péter Sólymos, 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;">
-Suggestions, comments and contributions are most welcome!</span><br>
-<br>
-<br>
-<br>
-<span style="font-weight: bold;"></span></div>
-</div>
-</body>
+to
+ the bublisher's website</a>]<br>
+ <br>
+ <br>
+ <div style="text-align: center;">
+ <img style="width: 600px; height: 451px;" alt=""
+ src="images/acceuil.png" height="788" width="1044"><br>
+ <br>
+ </div>
+ <div style="text-align: left;">
+ <div style="text-align: center;">
+ <small>sPCA, DAPC, typological coherence of markers,
+ Monmonier algorithm,
+ ...<br>
+ <br>
+ </small></div>
+ <small><br>
+ </small><span style="text-decoration: underline;">Main
+ features of adegenet
+ are:</span><br>
+ - data representation (<span style="font-weight: bold;">classes</span>)
+ suitable for multivariate analysis<br>
+ </div>
+ - data <span style="font-weight: bold;">import</span> from
+ GENETIX, STRUCTURE,
+ Genepop, Fstat, Easypop, or any dataframe of genotypes<br>
+ - data import from <span style="font-weight: bold;">aligned DNA
+ sequences</span> to <span style="font-weight: bold;">SNPs</span><br>
+ - data import from <span style="font-weight: bold;">aligned
+ protein
+ sequences</span> to polymorphic sites<span style="font-weight:
+ bold;"></span>
+ <br>
+ - data <span style="font-weight: bold;">export</span> to the R
+ packages
+ genetics, hierfstat, LDheatmap<br>
+ - handling of <span style="font-weight: bold;">different levels
+ of ploidy<br>
+ </span>- handling of <span style="font-weight: bold;">codominant
+ </span>markers<span style="font-weight: bold;"></span>and<span
+ style="font-weight: bold;">presence/absence</span> data<span
+ style="font-weight: bold;"><br>
+ </span>- basic and advanced <span style="font-weight: bold;">data
+ manipulation</span><br>
+ - basic <span style="font-weight: bold;">data information
+ </span>(heterozygosity, numbers of alleles, sample sizes, ...)<br>
+ - <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<br>
+ - computation of <span style="font-weight: bold;">genetic</span>
+ <span style="font-weight: bold;">distances<br>
+ </span>- computation of <span style="font-weight: bold;">pairwise
+ Fst
+ </span><br>
+ - simulation of <span style="font-weight: bold;">hybridization<br>
+ </span><span style="font-weight: bold;"></span>- methods for <span
+ style="font-weight: bold;">spatial genetics: sPCA, </span><span
+ style="font-weight: bold;">tests for global and local
+ structuring, </span><span style="font-weight: bold;">Monmonier
+ algorithm<br>
+ </span>- the <span style="font-style: italic; font-weight:
+ bold;">seqTrack</span><span style="font-weight: bold;">algorithm
+ </span>for reconstructing genealogies of
+ haplotypes<span style="font-weight: bold;"><br>
+ </span>- simulation of <span style="font-weight: bold;">genealogies
+ of
+ haplotypes</span><br>
+ - Discriminant Analysis of Principal Components (<span
+ style="font-weight: bold;">DAPC</span>)<span
+ style="font-weight: bold;"></span><br>
+ - efficient genome-wise SNP data handling and analysis <br>
+ - <b>extraction of SNPs</b> from genomic alignments <br>
+ - <span style="font-weight: bold;">graph-based clustering</span>
+ of genomic
+ data<br>
+ - identification of mutations between pairs of sequences <img
+ style="width: 80px; height: 37px;" alt="" src="images/new.png"><br>
+ <span style="font-weight: bold;"><br>
+ <span style="text-decoration: underline; font-weight: bold;">Maintainer</span></span><span
+ 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>),
+ Ismaïl
+ Ahmed (<a href="mailto:ismail.ahmed at inserm.fr">ismail.ahmed at inserm.fr</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<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;">
+ Suggestions, comments and contributions are most welcome!</span><br>
+ <br>
+ <br>
+ <br>
+ <span style="font-weight: bold;"></span></div>
+ </div>
+ </body>
</html>
Modified: www/download.html
===================================================================
--- www/download.html 2013-01-29 18:11:00 UTC (rev 1065)
+++ www/download.html 2013-01-30 15:01:47 UTC (rev 1066)
@@ -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>download</title>
- <script type="text/javascript">
+ <head>
+ <meta content="text/html; charset=ISO-8859-1"
+ http-equiv="content-type">
+ <title>download</title>
+ <script type="text/javascript">
var _gaq = _gaq || [];
_gaq.push(['_setAccount', 'UA-20083187-1']);
@@ -17,156 +17,178 @@
})();
</script>
-</head>
-<body>
-<br>
-<br>
-<br>
-<div style="margin-left: 40px;"><img alt="" src="images/bullet.png"
- style="width: 10px; height: 10px;"> The package adegenet is available
-from <a href="http://cran.r-project.org/mirrors.html">CRAN</a> (stable
-version).<br>
-<br>
-<img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
-The <span style="font-weight: bold;">current stable version</span>
-(adegenet_1.3-5) is available as:<br>
-- <a href="files/adegenet_1.3-5.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.3-5.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.3-5.zip">Windows binary</a><br>
-<br>
-<img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
-The <span style="font-weight: bold;">devel version</span>
-(adegenet_1.3-6) is also available from <a
- href="https://r-forge.r-project.org/scm/?group_id=120" target="_top">R-Forge's
+ </head>
+ <body>
+ <br>
+ <br>
+ <br>
+ <div style="margin-left: 40px;"><img alt="" src="images/bullet.png"
+ style="width: 10px; height: 10px;"> The package adegenet is
+ available
+ from <a href="http://cran.r-project.org/mirrors.html">CRAN</a>
+ (stable
+ version).<br>
+ <br>
+ <img alt="" src="images/bullet.png" style="width: 10px; height:
+ 10px;">
+ The <span style="font-weight: bold;">current stable version</span>
+ (adegenet_1.3-6) is available as:<br>
+ - <a href="files/adegenet_1.3-6.tar.gz">linux sources</a><br>
+ - MacOS X binary<br>
+ - <a href="files/adegenet_1.3-6.zip">Windows binary</a><br>
+ <br>
+ <img alt="" src="images/bullet.png" style="width: 10px; height:
+ 10px;">
+ The <span style="font-weight: bold;">devel version</span>
+ (adegenet_1.3-7) is also available from <a
+ href="https://r-forge.r-project.org/scm/?group_id=120"
+ target="_top">R-Forge's
+ daily
+ snapshots</a>.<br>
+ It can be installed directly from R console using: <br>
+ <span style="font-family: monospace;">install.packages("adegenet",repos="http://r-forge.r-project.org")<br>
+ <br>
+ </span><img alt="" src="images/bullet.png" style="width: 10px;
+ height: 10px;"> <span style="font-weight: bold;">Patches</span>
+ <br>
+ Patches correct minor bugs or implement new functionnalities, and
+ will
+ be included into the next CRAN release. It is recommended to use
+ these
+ versions instead of the current (CRAN) ones. Simply download the
+ file
+ (right click -> 'Save link as') in your working directory and
+ type <span style="font-family: monospace;">source("[your-patch-file.R]")</span>
-daily
-snapshots</a>.<br>
-It can be installed directly from R console using: <br>
-<span style="font-family: monospace;">install.packages("adegenet",repos="http://r-forge.r-project.org")<br>
-<br>
-</span><img alt="" src="images/bullet.png"
- style="width: 10px; height: 10px;"> <span style="font-weight: bold;">Patches</span>
-<br>
-Patches correct minor bugs or implement new functionnalities, and will
-be included into the next CRAN release. It is recommended to use these
-versions instead of the current (CRAN) ones. Simply download the file
-(right click -> 'Save link as') in your working directory and type <span
- style="font-family: monospace;">source("[your-patch-file.R]")</span>
-
to
-use a patch.<br>
-<a href="files/patches/addedFeatures.R"><span
- style="font-family: monospace;">addedFeatures.R</span></a>: (for
-adegenet >=1.3-1) added features not included in the CRAN version of
-the package; includes conversion from <span
- style="font-family: monospace;">seqTrack </span>outputs to <span
- style="font-family: monospace;">graphNEL </span>objects.<br>
-<a href="files/patches/export.R"><span style="font-family: monospace;"></span></a><br>
-<img alt="" src="images/bullet.png" style="width: 10px; height: 10px;">
-<span style="font-weight: bold;">Older versions</span>:<br>
-adegenet _1.3-4<br>
-- <a href="files/adegenet_1.3-4.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.3-4.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.3-4.zip">Windows binary</a><br>
-<br>
-adegenet _1.3-3<br>
-- <a href="files/adegenet_1.3-3.tar.gz">linux/unix sources</a><br>
-- MacOS X binary<br>
-- Windows binary<br>
-<br>
-adegenet _1.3-2<br>
-- <a href="files/adegenet_1.3-2.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.3-2.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.3-2.zip">Windows binary</a><br>
-<br>
-adegenet_1.3-1<br>
-- <a href="files/adegenet_1.3-1.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.3-1.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.3-1.zip">Windows binary</a><br>
-<br>
-adegenet_1.3-0<br>
-- <a href="files/adegenet_1.3-0.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.3-0.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.3-0.zip">Windows binary<br>
-</a><a href="files/adegenet_1.3-0.zip"></a><br>
-adegenet_1.2-9: there is no adegenet_1.2-9...<br>
-<br>
-adegenet_1.2-8<br>
-- <a href="files/adegenet_1.2-8.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-8.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-8.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-7<br>
-- <a href="files/adegenet_1.2-7.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-7.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-7.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-6<br>
-- <a href="files/adegenet_1.2-6.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-6.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-6.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-5<br>
-- <a href="files/adegenet_1.2-5.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-5.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-5.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-4<br>
-- <a href="files/adegenet_1.2-4.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-4.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-4.zip">Windows binary</a><br>
-<br>
-adegenet_1.3-3<br>
-- <a href="files/adegenet_1.2-3.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-3.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-3.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-2<br>
-- <a href="files/adegenet_1.2-2.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-2.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-2.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-1<br>
-- <a href="files/adegenet_1.2-1.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-1.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-1.zip">Windows binary</a><br>
-<br>
-adegenet_1.2-0<br>
-- <a href="files/adegenet_1.2-0.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.2-0.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.2-0.zip">Windows binary</a><br>
-<br>
-adegenet_1.1-2<br>
-- <a href="files/adegenet_1.1-2.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.1-2.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.1-2.zip">Windows binary</a><br>
-<br>
-adegenet_1.1-1<br>
-- <a href="files/adegenet_1.1-1.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.1-1.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.1-1.zip">Windows binary</a><br>
-<br>
-adegenet_1.1-0<br>
-- <a href="files/adegenet_1.1-0.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.1-0.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.1-0.zip">Windows binary</a><br>
-<br>
-adegenet_1.0-2<br>
-- <a href="files/adegenet_1.0-2.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.0-2.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.0-2.zip">Windows binary</a><br>
-<br>
-adegenet_1.0-1<br>
-- <a href="files/adegenet_1.0-1.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.0-1.tgz">MacOS X binary</a><br>
-- <a href="files/adegenet_1.0-1.zip">Windows binary</a><span
- style="text-decoration: underline;"><br>
-<br>
-</span>adegenet_1.0-0<br>
-- <a href="files/adegenet_1.0-0.tar.gz">linux/unix sources</a><br>
-- <a href="files/adegenet_1.0-0.tgz">MacOS X binary</a> <br>
-- <a href="files/adegenet_1.0-0.zip">Windows binary</a><br>
-<span style="font-weight: bold;"></span><br>
-</div>
-</body>
+use
+ a patch.<br>
+ <a href="files/patches/addedFeatures.R"><span style="font-family:
+ monospace;">addedFeatures.R</span></a>: (for
+ adegenet >=1.3-1) added features not included in the CRAN
+ version of
+ the package; includes conversion from <span style="font-family:
+ monospace;">seqTrack </span>outputs to <span
+ style="font-family: monospace;">graphNEL </span>objects.<br>
+ <a href="files/patches/export.R"><span style="font-family:
+ monospace;"></span></a><br>
+ <img alt="" src="images/bullet.png" style="width: 10px; height:
+ 10px;">
+ <span style="font-weight: bold;">Older versions</span>:<br>
+ adegenet _1.3-5<br>
+ - <a
+ href="file:///home/thibaut/dev/adegenet/www/files/adegenet_1.3-5.tar.gz">linux
+ sources</a><br>
+ - <a
+ href="file:///home/thibaut/dev/adegenet/www/files/adegenet_1.3-5.tgz">MacOS
+ X binary</a><br>
+ - <a
+ href="file:///home/thibaut/dev/adegenet/www/files/adegenet_1.3-5.zip">Windows
+ binary</a><br>
+ <br>
+ adegenet _1.3-4<br>
+ - <a href="files/adegenet_1.3-4.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.3-4.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.3-4.zip">Windows binary</a><br>
+ <br>
+ adegenet _1.3-3<br>
+ - <a href="files/adegenet_1.3-3.tar.gz">linux sources</a><br>
+ - MacOS X binary<br>
+ - Windows binary<br>
+ <br>
+ adegenet _1.3-2<br>
+ - <a href="files/adegenet_1.3-2.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.3-2.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.3-2.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.3-1<br>
+ - <a href="files/adegenet_1.3-1.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.3-1.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.3-1.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.3-0<br>
+ - <a href="files/adegenet_1.3-0.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.3-0.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.3-0.zip">Windows binary<br>
+ </a><a href="files/adegenet_1.3-0.zip"></a><br>
+ adegenet_1.2-9: there is no adegenet_1.2-9...<br>
+ <br>
+ adegenet_1.2-8<br>
+ - <a href="files/adegenet_1.2-8.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-8.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-8.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-7<br>
+ - <a href="files/adegenet_1.2-7.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-7.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-7.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-6<br>
+ - <a href="files/adegenet_1.2-6.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-6.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-6.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-5<br>
+ - <a href="files/adegenet_1.2-5.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-5.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-5.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-4<br>
+ - <a href="files/adegenet_1.2-4.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-4.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-4.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.3-3<br>
+ - <a href="files/adegenet_1.2-3.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-3.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-3.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-2<br>
+ - <a href="files/adegenet_1.2-2.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-2.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-2.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-1<br>
+ - <a href="files/adegenet_1.2-1.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-1.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-1.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.2-0<br>
+ - <a href="files/adegenet_1.2-0.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.2-0.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.2-0.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.1-2<br>
+ - <a href="files/adegenet_1.1-2.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.1-2.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.1-2.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.1-1<br>
+ - <a href="files/adegenet_1.1-1.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.1-1.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.1-1.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.1-0<br>
+ - <a href="files/adegenet_1.1-0.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.1-0.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.1-0.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.0-2<br>
+ - <a href="files/adegenet_1.0-2.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.0-2.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.0-2.zip">Windows binary</a><br>
+ <br>
+ adegenet_1.0-1<br>
+ - <a href="files/adegenet_1.0-1.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.0-1.tgz">MacOS X binary</a><br>
+ - <a href="files/adegenet_1.0-1.zip">Windows binary</a><span
+ style="text-decoration: underline;"><br>
+ <br>
+ </span>adegenet_1.0-0<br>
+ - <a href="files/adegenet_1.0-0.tar.gz">linux sources</a><br>
+ - <a href="files/adegenet_1.0-0.tgz">MacOS X binary</a> <br>
+ - <a href="files/adegenet_1.0-0.zip">Windows binary</a><br>
+ <span style="font-weight: bold;"></span><br>
+ </div>
+ </body>
</html>
Modified: www/files/adegenet-basics.pdf
===================================================================
--- www/files/adegenet-basics.pdf 2013-01-29 18:11:00 UTC (rev 1065)
+++ www/files/adegenet-basics.pdf 2013-01-30 15:01:47 UTC (rev 1066)
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[TRUNCATED]
To get the complete diff run:
svnlook diff /svnroot/adegenet -r 1066
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