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author kkonganti
date Thu, 04 Aug 2022 10:45:55 -0400
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kkonganti@101 1 # CPIPES (CFSAN PIPELINES)
kkonganti@101 2
kkonganti@101 3 ## The modular pipeline repository at CFSAN, FDA
kkonganti@101 4
kkonganti@101 5 **CPIPES** (CFSAN PIPELINES) is a collection of modular pipelines based on **NEXTFLOW**,
kkonganti@101 6 mostly for bioinformatics data analysis at **CFSAN, FDA.**
kkonganti@101 7
kkonganti@101 8 ---
kkonganti@101 9
kkonganti@101 10 ### **LICENSES**
kkonganti@101 11
kkonganti@101 12 \
kkonganti@101 13  
kkonganti@101 14
kkonganti@101 15 **CPIPES** is licensed under:
kkonganti@101 16
kkonganti@101 17 ```text
kkonganti@101 18 MIT License
kkonganti@101 19
kkonganti@101 20 In the U.S.A. Public Domain; elsewhere Copyright (c) 2022 U.S. Food and Drug Administration
kkonganti@101 21
kkonganti@101 22 Permission is hereby granted, free of charge, to any person obtaining a copy
kkonganti@101 23 of this software and associated documentation files (the "Software"), to deal
kkonganti@101 24 in the Software without restriction, including without limitation the rights
kkonganti@101 25 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
kkonganti@101 26 copies of the Software, and to permit persons to whom the Software is
kkonganti@101 27 furnished to do so, subject to the following conditions:
kkonganti@101 28
kkonganti@101 29 The above copyright notice and this permission notice shall be included in all
kkonganti@101 30 copies or substantial portions of the Software.
kkonganti@101 31
kkonganti@101 32 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
kkonganti@101 33 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
kkonganti@101 34 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
kkonganti@101 35 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
kkonganti@101 36 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
kkonganti@101 37 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
kkonganti@101 38 SOFTWARE.
kkonganti@101 39 ```
kkonganti@101 40
kkonganti@101 41 \
kkonganti@101 42  
kkonganti@101 43
kkonganti@101 44 Portions of **CPIPES** are built on modified versions of many tools, scripts and libraries from [nf-core/modules](https://github.com/nf-core/modules) and [nf-core/rnaseq](https://github.com/nf-core/rna-seq) which are originally licensed under:
kkonganti@101 45
kkonganti@101 46 ```text
kkonganti@101 47 MIT License
kkonganti@101 48
kkonganti@101 49 Copyright (c) Philip Ewels
kkonganti@101 50 Copyright (c) Phil Ewels, Rickard Hammarén
kkonganti@101 51
kkonganti@101 52 Permission is hereby granted, free of charge, to any person obtaining a copy
kkonganti@101 53 of this software and associated documentation files (the "Software"), to deal
kkonganti@101 54 in the Software without restriction, including without limitation the rights
kkonganti@101 55 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
kkonganti@101 56 copies of the Software, and to permit persons to whom the Software is
kkonganti@101 57 furnished to do so, subject to the following conditions:
kkonganti@101 58
kkonganti@101 59 The above copyright notice and this permission notice shall be included in all
kkonganti@101 60 copies or substantial portions of the Software.
kkonganti@101 61
kkonganti@101 62 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
kkonganti@101 63 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
kkonganti@101 64 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
kkonganti@101 65 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
kkonganti@101 66 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
kkonganti@101 67 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
kkonganti@101 68 SOFTWARE.
kkonganti@101 69 ```
kkonganti@101 70
kkonganti@101 71 \
kkonganti@101 72  
kkonganti@101 73
kkonganti@101 74 The **MultiQC** report, in addition uses [DataTables](https://datatables.net), which is licensed under:
kkonganti@101 75
kkonganti@101 76 ```text
kkonganti@101 77 MIT License
kkonganti@101 78
kkonganti@101 79 Copyright (C) 2008-2022, SpryMedia Ltd.
kkonganti@101 80
kkonganti@101 81 Permission is hereby granted, free of charge, to any person obtaining a copy
kkonganti@101 82 of this software and associated documentation files (the "Software"), to deal
kkonganti@101 83 in the Software without restriction, including without limitation the rights
kkonganti@101 84 to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
kkonganti@101 85 copies of the Software, and to permit persons to whom the Software is
kkonganti@101 86 furnished to do so, subject to the following conditions:
kkonganti@101 87
kkonganti@101 88 The above copyright notice and this permission notice shall be included in all
kkonganti@101 89 copies or substantial portions of the Software.
kkonganti@101 90
kkonganti@101 91 THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
kkonganti@101 92 IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
kkonganti@101 93 FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
kkonganti@101 94 AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
kkonganti@101 95 LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
kkonganti@101 96 OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN THE
kkonganti@101 97 SOFTWARE.
kkonganti@101 98 ```