CyteArc is copyright Nygen Analytics AB and is licensed under the BSD 3-Clause License in the
LICENSE file. Parts of CyteArc derive from the third-party software listed below, and the
repository includes a font and small excerpts of public data. Each keeps its own license, and the
full license texts are at the end of this file. The dataset sections credit the data that the
documentation and tests download, and a later section lists optional packages that CyteArc can
use but does not install.
Software¶
Scanpy¶
Copyright (c) 2025 scverse®; Copyright (c) 2017 F. Alexander Wolf, P. Angerer, Theis Lab
License: BSD-3-Clause
Used in:
cytearc/features/scoring.py(gene-set scoring adapted fromscore_genes),cytearc/datastore/_operations/quality_control.py(the control-set size of cell-cycle scoring), and the categorical palettes incytearc/plotting/_style.py.
umap-learn¶
Source: https://
github .com /lmcinnes /umap Copyright (c) 2017, Leland McInnes
License: BSD-3-Clause
Used in:
cytearc/embeddings/umap.py(the densMAP density terms and the fuzzy set union) and the UMAP parameter descriptions incytearc/datastore/_operations/embeddings.py.
Seurat¶
Copyright (c) 2021 Seurat authors
License: MIT
Used in:
cytearc/neighbors/integration.py(the modality weights and constants ofFindModalityWeightsandMultiModalNN),cytearc/quality_control/hto.py(the HTODemux procedure),scripts/export_seurat_wnn_golden.R(expressions copied fromFindModalityWeights), and the reference equations intests/test_knn_utils.py.
chromVAR¶
Copyright (c) 2017 Stanford University
License: MIT
Used in:
cytearc/features/enrichment/chromvar.py(background-peak sampling translated fromgetBackgroundPeaks, and the deviation computation) andtests/test_enrichment_chromvar.py(chromVAR’s test inputs and expected values).
MOODS¶
Copyright (C) 2007-2015 Pasi Rastas, Janne H. Korhonen, Petri Martinmäki
License: MOODS is licensed under the GPL-3.0-or-later or the Biopython License Agreement, at the recipient’s choice. CyteArc uses it under the Biopython License Agreement.
Used in:
cytearc/features/genomic/motifs.py(log-odds scoring,min_delta, and the p-value threshold computation, translated fromcore/moods_tools.cpp).
BPCells¶
Copyright (c) 2021-2023 BPCells contributors
License: BPCells is licensed under the Apache-2.0 or the MIT License, at the recipient’s choice. CyteArc uses it under the MIT License.
Used in:
cytearc/readers/_seurat/operations.py(_rank_valuesfollowsColwiseRank).
decoupler¶
Copyright (c) 2025, scverse®; Copyright (c) 2025, Pau Badia i Mompel, Saez lab
License: BSD-3-Clause
Used in:
cytearc/features/enrichment/aucell.py(the AUC kernel and then_updefault).
arboreto¶
Copyright (c) 2017, Thomas Moerman
License: BSD-3-Clause
Used in:
cytearc/regulons/grn.py(the early-stopping monitor, the GRNBoost2 defaults, and the importance scaling).
SciPy¶
Source: https://
github .com /scipy /scipy Copyright (c) 2001-2002 Enthought, Inc. 2003, SciPy Developers.
License: BSD-3-Clause
Used in:
cytearc/features/markers/regression.py(the correlation and its p-value, adapted fromscipy.stats.linregress).
scib-metrics¶
Copyright (c) 2022, Adam Gayoso
License: BSD-3-Clause
Used in:
cytearc/metrics/lisi.py(the names, defaults, and scaling ofilisi_knnandclisi_knn).
EoN (Epidemics on Networks)¶
Source: https://
github .com /springer -math /Mathematics -of -Epidemics -on -Networks Copyright (c) 2016 Joel C Miller
License: MIT
Used in:
cytearc/plotting/cluster_tree.py(_hierarchy_positions, the tree layout adapted fromhierarchy_pos).
scikit-learn¶
Copyright (c) 2007-2026 The scikit-learn developers.
License: BSD-3-Clause
Used in:
tests/paris_quality_gate.py(the adjusted Rand index in scikit-learn’s pair-confusion form). This is test code and is not part of the installed package.
Fonts¶
Inter¶
Source: https://
github .com /rsms /inter (version 4.1, unmodified) Copyright (c) 2016 The Inter Project Authors (https://
github .com /rsms /inter) License: SIL Open Font License 1.1
Used in:
cytearc/agent/report_assets.py. Every HTML report that CyteArc generates embeds the font and keeps its license in a source comment.
Data in this repository¶
JASPAR (https://
jaspar .elixir .no), CC BY 4.0: the motif matrices MA0004.1 (Arnt) and MA0006.1 (Ahr::Arnt), and an excerpt of the MEME export of MA0004.1, in tests/test_genomic_motifs.py. Rauluseviciute et al. (2024), Nucleic Acids Research, doi:10.1093/nar/gkad1059.10x Genomics, CC BY 4.0:
tests/seurat_wnn_5_5_1_golden.jsonholds Seurat 5.5.1 outputs on principal components of 300 cells of thetenx_8K_pbmc_citeseqdataset, and the reference images intests/visual/showcase/are rendered from the 1k PBMC CITE-seq test fixture. Both datasets are credited below.GEO GSE245108: hashtag counts in
tests/seurat_hto_5_5_1_golden.json, from Zhang et al. (2024), Nature Immunology, doi:10.1038/s41590-024-01782-4.Color palettes in
cytearc/plotting/_style.py: the 10- and 20-color sets are Tableau 10 and 20 as distributed with matplotlib (the 10-color set with Scanpy’s colorblind substitutions), the 28-color set is from Zeileis, Hornik, and Murrell (2009), Computational Statistics & Data Analysis, doi:10.1016/j.csda.2008.11.033, and the 102-color set is from Tatarize’s “Color Distribution Methodology”. All four are as compiled in Scanpy.
Example datasets¶
cytearc.datasets.connect("cytearc_docs") downloads these from Nygen’s public Nygen/cytebase
bucket on Hugging Face. They are not part of the CyteArc package. Nygen converted each source to a
CyteArc store and analyzed it, and the manifest.json file next to each store records the steps.
Cite the original studies when you use the data.
| Dataset | Source | License or terms |
|---|---|---|
tenx_5K_pbmc_rnaseq | “5k Peripheral blood mononuclear cells (PBMCs) from a healthy donor (v3 chemistry)”, 10x Genomics, https:// | CC BY 4.0 |
tenx_8K_pbmc_citeseq | “10k PBMCs from a Healthy Donor - Gene Expression and Cell Surface Protein”, 10x Genomics, https:// | CC BY 4.0 |
tenx_10K_pbmc-v1_atacseq | “10k Peripheral blood mononuclear cells (PBMCs) from a healthy donor”, Single Cell ATAC v1.0, 10x Genomics, https:// | CC BY 4.0 |
tenx_1.3M_brain_rnaseq | “1.3 Million Brain Cells from E18 Mice”, 10x Genomics, https:// | CC BY 4.0 |
kang_15K_pbmc_rnaseq, kang_14K_ifnb-pbmc_rnaseq, kang_29K_ctrl-ifnb_pbmc_rnaseq | Kang et al. (2018), Nature Biotechnology 36:89-94, doi:10.1038/nbt.4042; GEO GSE96583 | GEO; no license stated |
bastidas-ponce_4K_pancreas-d15_rnaseq | Bastidas-Ponce et al. (2019), Development 146:dev173849, doi:10.1242/dev.173849; GEO GSE132188. The processed file data/Pancreas/endocrinogenesis_day15.h5ad comes from the Theis lab repository https:// | GEO; the processed file states no license |
xin_1K_pancreas_rnaseq | Xin et al. (2016), Cell Metabolism 24:608-615, doi:10.1016/j.cmet.2016.08.018; GEO GSE81608 | GEO; no license stated |
swanson_7K_pbmc_teaseq | Swanson et al. (2021), eLife 10:e63632, doi:10.7554/eLife.63632. Built from GSM5123951_PBMC_permcells_TEA-seq_SeuratObject.rds by Lucas Graybuck, Elliott Swanson, and Peter Skene (Zenodo, doi:10.5281/zenodo.6360802) and the paper’s Figure 4 source data 2 | CC BY 4.0 |
tabula_sapiens, tabula_sapiens_100k | The Tabula Sapiens Consortium (2024), bioRxiv, doi:10.1101/2024.12.03.626516; “Tabula Sapiens - All Cells” from CZ CELLxGENE Discover, https://tabula_sapiens_100k is a 100,000-cell sample | CC BY 4.0, and the Tabula Sapiens Data Release Policy, https:// |
annotations | Gene-body coordinates derived from GENCODE, Frankish et al. (2023), Nucleic Acids Research, doi:10.1093/nar/gkac1071 | No restrictions stated |
CC BY 4.0 is the Creative Commons Attribution 4.0 International license,
https://
Test datasets¶
tests/download_fixtures.py downloads these from the same bucket. They are not part of the CyteArc
package.
| File | Source | License or terms |
|---|---|---|
1K_pbmc_citeseq.h5 | “1k Human PBMCs with TotalSeq-B Human TBNK Antibody Cocktail, 3’ LT v3.1”, 10x Genomics, https:// | CC BY 4.0 |
500_pbmc_atac.zarr.tar.gz | “500 Peripheral Blood Mononuclear Cells (PBMCs) from a Healthy Donor (Next GEM v1.1)”, 10x Genomics, https:// | CC BY 4.0 |
cell_attributes.csv, knn_*.npy, atac_knn_*.npy, markers_cluster1.csv, pseudotime_*, aggregated_*, ptime_modules_group_1.npy | Analysis outputs computed from the two 10x Genomics datasets above | CC BY 4.0 |
toy_cr_dir.tar.gz, toy_cr_dir_empty.tar.gz | Synthetic Cell Ranger-style directories | BSD-3-Clause, as in LICENSE |
seurat_assay5_synthetic.rds | tests/data/synthetic.rds from https:// | MIT, Copyright (c) 2026 harryhaller001 |
seurat_v4_1_3_pbmc_mye.rds | pbmc10k_mye_small_velocyto.rds by Hua Yichao, SeuratExtend example data (Zenodo, doi:10.5281/zenodo.10944066), derived from 10x Genomics PBMC data | CC0 1.0; the underlying 10x Genomics data are CC BY 4.0 |
Data that tutorials download from their publishers¶
| Tutorial | Source | License or terms |
|---|---|---|
| Regulons and gene programs | “PBMC from a Healthy Donor - Granulocytes Removed Through Cell Sorting (3k)”, Single Cell Multiome ATAC + Gene Expression, 10x Genomics, https:// | CC BY 4.0 |
| Regulons and gene programs | cisTarget ranking database, motif-to-factor table, and factor list from the Stein Aerts lab, https:// | No terms stated. The v10 motif collection includes motifs derived from TRANSFAC Professional, a commercial database, so confirm the terms before commercial use |
| Regulons and gene programs | JASPAR 2024 CORE vertebrate motifs, Rauluseviciute et al. (2024), Nucleic Acids Research, doi:10.1093/nar/gkad1059 | CC BY 4.0 |
| Regulons and gene programs | GENCODE release 32 genome and annotation, Frankish et al. (2023), Nucleic Acids Research, doi:10.1093/nar/gkac1071 | No restrictions stated |
| Regulons and gene programs | SPI1 CUT&RUN peaks of experiment SRX26995709 from ChIP-Atlas, Zou et al. (2024), Nucleic Acids Research, doi:10.1093/nar/gkae358. ChIP-Atlas (c) Shinya Oki (Kyoto University) licensed under CC Attribution-Share Alike 4.0 International | CC BY-SA 4.0, https:// |
| Harmony batch correction, Donor-level comparisons, Pseudobulk export | Binvignat et al. (2024), JCI Insight, doi:10.1172/jci.insight.178499, from CZ CELLxGENE Discover, https:// | CC BY 4.0 |
| HTO demultiplexing | Stoeckius et al. (2018), Genome Biology 19:224, doi:10.1186/s13059-018-1603-1; GEO GSE108313 (GSM2895282, GSM2895283) | GEO; no license stated |
| CyteBase datasets and CyteBase composite datasets | Datasets from CZ CELLxGENE Discover, each credited in its CyteBase catalog entry | The license of each dataset on CELLxGENE Discover, usually CC BY 4.0 |
Optional packages that CyteArc does not install¶
CyteArc contains no code from these GPL-licensed packages, and its default installation does not include them:
sgtsnepi (GPL-3.0) computes t-SNE. The
tsneextra installs it, and thetestanddocsextras install it on Linux x86_64.igraph (GPL-2.0-or-later) and leidenalg (GPL-3.0-or-later) serve the optional
"igraph"and"leidenalg"Leiden backends. No CyteArc extra installs them.
License texts¶
Scanpy¶
BSD 3-Clause License
Copyright (c) 2025 scverse®
Copyright (c) 2017 F. Alexander Wolf, P. Angerer, Theis Lab
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* 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.
* Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.umap-learn¶
BSD 3-Clause License
Copyright (c) 2017, Leland McInnes
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* 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.
* Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.Seurat¶
# MIT License
Copyright (c) 2021 Seurat 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:
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.chromVAR¶
Copyright (c) 2017 Stanford University
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.MOODS (Biopython License Agreement)¶
Biopython License Agreement
Permission to use, copy, modify, and distribute this software and its
documentation with or without modifications and for any purpose and
without fee is hereby granted, provided that any copyright notices
appear in all copies and that both those copyright notices and this
permission notice appear in supporting documentation, and that the
names of the contributors or copyright holders not be used in
advertising or publicity pertaining to distribution of the software
without specific prior permission.
THE CONTRIBUTORS AND COPYRIGHT HOLDERS OF THIS SOFTWARE DISCLAIM ALL
WARRANTIES WITH REGARD TO THIS SOFTWARE, INCLUDING ALL IMPLIED
WARRANTIES OF MERCHANTABILITY AND FITNESS, IN NO EVENT SHALL THE
CONTRIBUTORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY SPECIAL, INDIRECT
OR CONSEQUENTIAL DAMAGES OR ANY DAMAGES WHATSOEVER RESULTING FROM LOSS
OF USE, DATA OR PROFITS, WHETHER IN AN ACTION OF CONTRACT, NEGLIGENCE
OR OTHER TORTIOUS ACTION, ARISING OUT OF OR IN CONNECTION WITH THE USE
OR PERFORMANCE OF THIS SOFTWARE.BPCells (MIT License)¶
Copyright (c) 2021-2023 BPCells contributors
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.decoupler¶
BSD 3-Clause License
Copyright (c) 2025, scverse®
Copyright (c) 2025, Pau Badia i Mompel, Saez lab
All rights reserved.
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.
3. Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.arboreto¶
BSD 3-Clause License
Copyright (c) 2017, Thomas Moerman
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* 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.
* Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.SciPy¶
Copyright (c) 2001-2002 Enthought, Inc. 2003, SciPy Developers.
All rights reserved.
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.
3. Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived
from this software without specific prior written permission.
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
OWNER 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.scib-metrics¶
BSD 3-Clause License
Copyright (c) 2022, Adam Gayoso
All rights reserved.
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.
3. Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.EoN¶
Copyright (c) 2016 Joel C Miller
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 OR SPRINGER 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.scikit-learn¶
BSD 3-Clause License
Copyright (c) 2007-2026 The scikit-learn developers.
All rights reserved.
Redistribution and use in source and binary forms, with or without
modification, are permitted provided that the following conditions are met:
* Redistributions of source code must retain the above copyright notice, this
list of conditions and the following disclaimer.
* 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.
* Neither the name of the copyright holder nor the names of its
contributors may be used to endorse or promote products derived from
this software without specific prior written permission.
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 HOLDER 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.Inter¶
Copyright (c) 2016 The Inter Project Authors (https://github.com/rsms/inter)
This Font Software is licensed under the SIL Open Font License, Version 1.1.
This license is copied below, and is also available with a FAQ at:
http://scripts.sil.org/OFL
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in the appropriate machine-readable metadata fields within text or
binary files as long as those fields can be easily viewed by the user.
3) No Modified Version of the Font Software may use the Reserved Font
Name(s) unless explicit written permission is granted by the corresponding
Copyright Holder. This restriction only applies to the primary font name as
presented to the users.
4) The name(s) of the Copyright Holder(s) or the Author(s) of the Font
Software shall not be used to promote, endorse or advertise any
Modified Version, except to acknowledge the contribution(s) of the
Copyright Holder(s) and the Author(s) or with their explicit written
permission.
5) The Font Software, modified or unmodified, in part or in whole,
must be distributed entirely under this license, and must not be
distributed under any other license. The requirement for fonts to
remain under this license does not apply to any document created
using the Font Software.
TERMINATION
This license becomes null and void if any of the above conditions are
not met.
DISCLAIMER
THE FONT SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND,
EXPRESS OR IMPLIED, INCLUDING BUT NOT LIMITED TO ANY WARRANTIES OF
MERCHANTABILITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT
OF COPYRIGHT, PATENT, TRADEMARK, OR OTHER RIGHT. IN NO EVENT SHALL THE
COPYRIGHT HOLDER BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
INCLUDING ANY GENERAL, SPECIAL, INDIRECT, INCIDENTAL, OR CONSEQUENTIAL
DAMAGES, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
FROM, OUT OF THE USE OR INABILITY TO USE THE FONT SOFTWARE OR FROM
OTHER DEALINGS IN THE FONT SOFTWARE.readseurat¶
MIT License
Copyright (c) 2026 harryhaller001
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.