This package is released under the GNU General Public License, Version 3, GPL-3 YEAR: 2020 COPYRIGHT HOLDERS: Yohann Demont, Gautier Stoll, Guido Kroemer, Jean-Pierre Marolleau, Loïc Garçon, INSERM, UPD, CHU Amiens IFC: An R Package for Imaging Flow Cytometry Copyright (C) 2020 Yohann Demont -------------------------------------------------------------------------------- hpp_rle_Decomp and hpp_gray_Decomp decompression in decomp.hpp are port from File src/loci/formats/in/FlowSightReader.java of BSD implementations of Bio-Formats readers and writers authored by Lee Kamentsky Copyright (C) 2005 - 2017 Open Microscopy Environment: - Board of Regents of the University of Wisconsin-Madison - Glencoe Software, Inc. - University of Dundee Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: 1. Redistributions of source code must retain the above copyright notice, this list of conditions and the following disclaimer. 2. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the following disclaimer in the documentation and/or other materials provided with the distribution. THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS" AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDERS OR CONTRIBUTORS BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE. -------------------------------------------------------------------------------- hpp_fast_factor is adapted from Kevin Ushey's code presented in Rcpp gallery. Rcpp is under GPL >= 2 Dirk Eddelbuettel and Romain Francois (2011). Rcpp: Seamless R and C++ Integration. Journal of Statistical Software, 40(8), 1-18. URL https://www.jstatsoft.org/v40/i08/. Eddelbuettel, Dirk (2013) Seamless R and C++ Integration with Rcpp. Springer, New York. ISBN 978-1-4614-6867-7. Dirk Eddelbuettel and James Joseph Balamuta (2018). Extending R with C++: A Brief Introduction to Rcpp. The American Statistician. 72(1). URL https://doi.org/10.1080/00031305.2017.1375990. -------------------------------------------------------------------------------- popsNetwork in popsNetwork.R is using visNetwork package authored by Almende B.V., Benoit Thieurmel and Titouan Robert COPYRIGHT HOLDER: Benoit Thieurmel Based on http://opensource.org/licenses/MIT This is a template. Complete and ship as file LICENSE the following 2 lines (only) YEAR: COPYRIGHT HOLDER: and specify as License: MIT + file LICENSE Copyright (c) , Permission is hereby granted, free of charge, to any person obtaining a copy of this software and associated documentation files (the "Software"), to deal in the Software without restriction, including without limitation the rights to use, copy, modify, merge, publish, distribute, sublicense, and/or sell copies of the Software, and to permit persons to whom the Software is furnished to do so, subject to the following conditions: The above copyright notice and this permission notice shall be included in all copies or substantial portions of the Software. THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE SOFTWARE. -------------------------------------------------------------------------------- getFileExt is an adapation of file_ext function from File src/library/tools/R/utils.R, authored by Kurt Hornik and Friedrich Leisch Part of the R package, https://www.R-project.org Copyright (C) 1995-2016 The R Core Team This program 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 2 of the License, or (at your option) any later version. This program 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. A copy of the GNU General Public License is available at https://www.R-project.org/Licenses/ -------------------------------------------------------------------------------- Several functions to compute graphs in graphs_utils.R are derived from File src/library/lattice/R/histogram.R, authored by Deepayan Sarkar Copyright (C) 2001-2006 Deepayan Sarkar This file is part of the lattice package for R. It is made available under the terms of the GNU General Public License, version 2, or at your option, any later version, incorporated herein by reference. This program 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 this program; if not, write to the Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA This software is distributed under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. As of writing, this essentially boils down to two possible licenses, GPL version 2 and version 3. Copies of these licenses are available in files GPL-2 and GPL-3 in the sources of this package, as well as at http://www.r-project.org/Licenses/ -------------------------------------------------------------------------------- densCols is an adaptation from File src/library/grDevices/R/smooth2d.R, authored by Florian Hahne at FHCRC, originally Part of the R package, https://www.R-project.org Copyright (C) 1995-2012 The R Core Team This program 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 2 of the License, or (at your option) any later version. This program 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. A copy of the GNU General Public License is available at https://www.R-project.org/Licenses/ -------------------------------------------------------------------------------- hpp_HSV2RGB in color.hpp is an adapation from File src/library/grDevices/src/color.c R : A Computer Language for Statistical Data Analysis Copyright (C) 1997-2014 The R Core Team Copyright (C) 2003 The R Foundation This program 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 2 of the License, or (at your option) any later version. This program 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 this program; if not, a copy is available at https://www.R-project.org/Licenses/ -------------------------------------------------------------------------------- trigo_pnt_in_poly in gate.hpp is an adaptation of File src/pointinpolygon.c from SDMTools R package authored by Jeremy VanDerWal, Lorena Falconi, Stephanie Januchowski, Luke Shoo and Collin Storlie under GPL (>= 2)