Microarray_Affymetrix_3rd_Party_Software.md
June 2, 2023 · View on GitHub
The NASA GeneLab Affymetrix Microarray Processing Pipeline and workflow makes use of the following 3rd party Open Source software:
| 3rd Party Software Name | License | License URL | Copyright Notice |
|---|---|---|---|
| R | GNU GENERAL PUBLIC LICENSE Version 2, June 1991, and Version 3, 29 June 2007 | https://www.r-project.org/Licenses/ | Version 2: Copyright (C) 1989, 1991 Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed.; Version 3: Copyright (C) 2007 Free Software Foundation, Inc. http://fsf.org/ Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| DT | GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 | https://github.com/rstudio/DT/blob/main/LICENSE | Version 3: Copyright (C) 2007 Free Software Foundation, Inc. http://fsf.org/ Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| dplyr | MIT License Copyright (c) 2022 dplyr authors | https://github.com/tidyverse/dplyr/blob/main/LICENSE.md | Copyright (c) 2022 dplyr authors 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: |
| stringr | MIT License Copyright (c) 2020 stringr authors | https://github.com/tidyverse/stringr/blob/main/LICENSE.md | Copyright (c) 2020 stringr authors 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: |
| R.utils | GNU LESSER GENERAL PUBLIC LICENSE Version 2.1, February 1999 | https://github.com/HenrikBengtsson/R.utils/blob/2.12.2/DESCRIPTION | Copyright (C) 1991, 1999 Free Software Foundation, Inc. 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| oligo | GNU LESSER GENERAL PUBLIC LICENSE Version 2.1, February 1999 | https://www.bioconductor.org/packages/3.14/bioc/html/oligo.html | Copyright (C) 1991, 1999 Free Software Foundation, Inc. 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| limma | GNU GENERAL PUBLIC LICENSE Version 2, June 1991 | https://bioconductor.org/packages/3.14/bioc/html/limma.html | Version 2: Copyright (C) 1989, 1991 Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| glue | MIT License Copyright (c) 2021 glue authors | https://github.com/tidyverse/glue/blob/v1.6.2/LICENSE.md | Copyright (c) 2021 glue authors 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: |
| biomaRt | The Artistic License 2.0 | https://bioconductor.org/packages/3.14/bioc/manuals/biomaRt/man/biomaRt.pdf | Copyright (c) 2000-2006, The Perl FoundationEveryone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| matrixStats | The Artistic License 2.0 | https://github.com/HenrikBengtsson/matrixStats/blob/develop/DESCRIPTION | Copyright (c) 2000-2006, The Perl FoundationEveryone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| statmod | GNU GENERAL PUBLIC LICENSE Version 3, 29 June 2007 | https://github.com/cran/statmod/blob/1.5.0/DESCRIPTION | Version 3: Copyright (C) 2007 Free Software Foundation, Inc. http://fsf.org/ Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| Singularity | The BSD 3-clause License (MIT) Copyright (c) 2015-2017, Gregory M. Kurtzer. Copyright (c) 2016-2017, The Regents of the University of California. Copyright (c) 2017, SingularityWare, LLC. Copyright (c) 2018-2022, Sylabs, Inc. | https://docs.sylabs.io/guides/3.9/user-guide/license.html | Copyright (c) 2015-2017, Gregory M. Kurtzer. Copyright (c) 2016-2017, The Regents of the University of California. Copyright (c) 2017, SingularityWare, LLC. Copyright (c) 2018-2022, Sylabs, Inc. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: |
| dp_tools | The MIT License (MIT) Copyright (c) 2022 Jonathan Oribello | https://github.com/J-81/dp_tools/blob/main/LICENSE | Copyright (c) 2022 Jonathan Oribello. 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: |
| Quarto | GNU GENERAL PUBLIC LICENSE Version 2, June 1991 | https://quarto.org/license.html | Version 2: Copyright (C) 1989, 1991 Free Software Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301 USA Everyone is permitted to copy and distribute verbatim copies of this license document, but changing it is not allowed. |
| tibble | MIT License Copyright (c) 2019 RStudio and others | https://tibble.tidyverse.org/LICENSE.html | Copyright (c) 2019 RStudio and others. 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 |
| Nextflow | Apache License Version 2.0, January 2004 | https://github.com/nextflow-io/nextflow/blob/master/COPYING | Grant of Copyright License. Subject to the terms and conditions of this License, each Contributor hereby grants to You a perpetual, worldwide, non-exclusive, no-charge, royalty-free, irrevocable copyright license to reproduce, prepare Derivative Works of, publicly display, publicly perform, sublicense, and distribute the Work and such Derivative Works in Source or Object form. |
| python | The PSF LICENSE AGREEMENT Copyright (c) 2001-2022 Python Software Foundation | https://docs.python.org/3/license.html#psf-license-agreement-for-python-release | Copyright (c) 2001-2022 Python Software Foundation; All Rights Reserved |
| pandas | The BSD 3-clause License | https://github.com/pandas-dev/pandas/blob/main/LICENSE | Copyright (c) 2008-2011, AQR Capital Management, LLC, Lambda Foundry, Inc. and PyData Development Team; All rights reserved. Copyright (c) 2011-2022, Open source contributors. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met: |