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vidjil
Commit f988a47f authored by Marc Duez's avatar Marc Duez
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Merge branch 'master' of git+ssh://scm.gforge.inria.fr//gitroot/vidjil/vidjil

parents 1f68de6d 8980f5da
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algo/core/cluster-junctions.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, Marc Duez
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/compare-all.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/dynprog.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, Marc Duez
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/fasta.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vid>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, David Chatel
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/kmeraffect.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/kmerstore.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, David Chatel
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/labels.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
the Free Software Foundation, either version 3 of the License, or
(at your option) any later version.
"Vidjil" is distributed in the hope that it will be useful,
but WITHOUT ANY WARRANTY; without even the implied warranty of
MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
GNU General Public License for more details.
You should have received a copy of the GNU General Public License
along with "Vidjil". If not, see <http://www.gnu.org/licenses/>
*/
#include "labels.h"
#include <cmath>
......
algo/core/segment.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, Marc Duez
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/core/similarityMatrix.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......
algo/vidjil.cpp
View file @ f988a47f
/*
This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
Copyright (C) 2011, 2012, 2013, 2014 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
Contributors: Mathieu Giraud <mathieu.giraud@lifl.fr>, Mikaël Salson <mikael.salson@lifl.fr>, Marc Duez <marc.duez@lifl.fr>
This file is part of Vidjil <http://www.vidjil.org>
Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
Contributors:
Mathieu Giraud <mathieu.giraud@vidjil.org>
Mikaël Salson <mikael.salson@vidjil.org>
Marc Duez <marc.duez@vidjil.org>
"Vidjil" is free software: you can redistribute it and/or modify
it under the terms of the GNU General Public License as published by
......@@ -222,13 +226,15 @@ void usage(char *progname)
int main (int argc, char **argv)
{
cout << "# Vidjil -- V(D)J recombinations analysis <http://www.vidjil.org/>" << endl
<< "# Copyright (C) 2011, 2012, 2013, 2014 by the Vidjil team" << endl
<< "# Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille" << endl
<< "# Copyright (C) 2011, 2012, 2013, 2014, 2015 by the Vidjil team" << endl
<< "# Bonsai bioinformatics at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille" << endl
<< endl
<< "# Vidjil is free software, and you are welcome to redistribute it" << endl
<< "# under certain conditions -- see http://git.vidjil.org/blob/master/doc/LICENSE" << endl
<< "# No lymphocyte was harmed in the making of this software," << endl
<< "# however this software is for research use only and comes with no warranty." << endl
<< endl
<< "# Please cite http://biomedcentral.com/1471-2164/15/409 if you use Vidjil."
<< endl ;
//$$ options: defaults
......
browser/js/axis.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr>, Antonin Carette <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* Antonin Carette <antonin.carette@etudiant.univ-lille1.fr>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/clone.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/com.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......@@ -62,7 +66,7 @@ function Com(flash_id, log_id, popup_id, data_id) {
"welcome": " <h2>Vidjil <span class='logo'>(beta)</span></h2>"
+ "(c) 2011-2014, the Vidjil team" + "<br />Marc Duez, Mathieu Giraud and Mikaël Salson"
+ " &ndash; <a href='http://www.vidjil.org'>http://www.vidjil.org/</a>" + "</br>"
+ "</br>Vidjil is developed by the <a href='http://www.lifl.fr/bonsai'>Bonsai bioinformatics team</a> (LIFL, CNRS, U. Lille 1, Inria Lille), "
+ "</br>Vidjil is developed by the <a href='http://cristal.univ-lille.fr/bonsai'>Bonsai bioinformatics team</a> (CRIStAL, CNRS, Univ. Lille, Inria Lille), "
+ "in collaboration with the <a href='http://biologiepathologie.chru-lille.fr/organisation-fbp/91210.html'>department of Hematology</a> of CHRU Lille, "
+ "the <a href='http://www.ircl.org/plate-forme-genomique.html'>Functional and Structural Genomic Platform</a> (U. Lille 2, IFR-114, IRCL)"
+ " and the <a href='http://www.euroclonality.org/'>EuroClonality-NGS</a> working group."
......
browser/js/compare.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2014 by Carette Antonin <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonette Carin <antonin.carette@etudiant.univ-lille1.fr>
* The Vidjil Team <contact@vidjil.org>
*
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/dbscan.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2014 by Carette Antonin <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonette Carin <antonin.carette@etudiant.univ-lille1.fr>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/germline_builder.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/graph.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/list.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/menu.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr>, Antonin Carette <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/model.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/pdf.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/scatterPlot.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr>, Antonin Carette <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/segmenter.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
browser/js/shortcut.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2014 by Carette Antonin <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonin Carette <antonin.carette@etudiant.univ-lille1.fr>
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/stats.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2014 by Carette Antonin <antonin.carette@etudiant.univ-lille1.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
*
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Antonette Carin <antonin.carette@etudiant.univ-lille1.fr>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
* the Free Software Foundation, either version 3 of the License, or
......
browser/js/vidjil-style.js
View file @ f988a47f
/*
* This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>, V(D)J repertoire browsing and analysis
* Copyright (C) 2013, 2014 by Marc Duez <marc.duez@lifl.fr> and the Vidjil Team
* Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
* This file is part of Vidjil <http://www.vidjil.org>,
* High-throughput Analysis of V(D)J Immune Repertoire.
* Copyright (C) 2013, 2014, 2015 by Bonsai bioinformatics
* at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
* Contributors:
* Marc Duez <marc.duez@vidjil.org>
* The Vidjil Team <contact@vidjil.org>
*
* "Vidjil" is free software: you can redistribute it and/or modify
* it under the terms of the GNU General Public License as published by
......
doc/algo.org
View file @ f988a47f
#+TITLE: Vidjil Algorithm -- Command-line Manual
#+AUTHOR: The Vidjil team (Mathieu, Mikaël and Marc)
# Vidjil -- V(D)J recombinations analysis -- [[http://www.vidjil.org]]
# Copyright (C) 2011, 2012, 2013, 2014 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
# Vidjil -- High-throughput Analysis of V(D)J Immune Repertoire -- [[http://www.vidjil.org]]
# Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# contact@vidjil.org
V(D)J recombinations in lymphocytes are essential for immunological
......
server/fuse.py
View file @ f988a47f
......@@ -3,8 +3,14 @@
### fuse.py - Vidjil utility to parse and regroup list of clones of different timepoints or origins
# This file is part of "Vidjil" <http://bioinfo.lifl.fr/vidjil>
# Copyright (C) 2011, 2012, 2013, 2014 by Bonsai bioinformatics at LIFL (UMR CNRS 8022, Université Lille) and Inria Lille
# This file is part of Vidjil <http://www.vidjil.org>,
# High-throughput Analysis of V(D)J Immune Repertoire.
# Copyright (C) 2011, 2012, 2013, 2014, 2015 by Bonsai bioinformatics
# at CRIStAL (UMR CNRS 9189, Université Lille) and Inria Lille
# Contributors:
# Marc Duez <marc.duez@vidjil.org>
# Mathieu Giraud <mathieu.giraud@vidjil.org>
# The Vidjil Team <contact@vidjil.org>
#
# "Vidjil" is free software: you can redistribute it and/or modify
# it under the terms of the GNU General Public License as published by
......
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