library.bib

@misc{10x2018pbmc,
	title = {1k PBMCs from a Healthy Donor (v3 chemistry)},
	author = {{10x Genomics}},
	year = {2018},
	url = {https://www.10xgenomics.com/resources/datasets/1-k-pbm-cs-from-a-healthy-donor-v-3-chemistry-3-standard-3-0-0}
}


@misc{10x2019heart,
	title = {Human Heart},
	author = {{10x Genomics}},
	year = {2019},
	url = {https://www.10xgenomics.com/datasets/human-heart-1-standard-1-0-0}
}


@misc{10x2019lymph,
	title = {Human Lymph Node},
	author = {{10x Genomics}},
	year = {2019},
	url = {https://www.10xgenomics.com/datasets/human-lymph-node-1-standard-1-0-0}
}


@misc{10x2019pbmc,
	title = {5k Peripheral Blood Mononuclear Cells (PBMCs) from a Healthy Donor with a Panel of TotalSeq-B Antibodies (v3 chemistry)},
	author = {{10x Genomics}},
	year = {2019},
	url = {https://www.10xgenomics.com/resources/datasets/5-k-peripheral-blood-mononuclear-cells-pbm-cs-from-a-healthy-donor-with-cell-surface-proteins-v-3-chemistry-3-1-standard-3-1-0}
}


@misc{10x2020breast,
	title = {Human Breast Cancer: Whole Transcriptome Analysis},
	author = {{10x Genomics}},
	year = {2020},
	url = {https://www.10xgenomics.com/datasets/human-breast-cancer-whole-transcriptome-analysis-1-standard-1-2-0}
}


@misc{10x2020cerebellum,
	title = {Human Cerebellum: Whole Transcriptome Analysis},
	author = {{10x Genomics}},
	year = {2020},
	url = {https://www.10xgenomics.com/datasets/human-cerebellum-whole-transcriptome-analysis-1-standard-1-2-0}
}


@misc{10x2020kidney,
	title = {Mouse Kidney Section (Coronal)},
	author = {{10x Genomics}},
	year = {2020},
	url = {https://www.10xgenomics.com/datasets/mouse-kidney-section-coronal-1-standard-1-1-0}
}


@misc{10x2021breast,
	title = {Human Breast Cancer: Ductal Carcinoma In Situ, Invasive Carcinoma (FFPE)},
	author = {{10x Genomics}},
	year = {2021},
	url = {https://www.10xgenomics.com/datasets/human-breast-cancer-ductal-carcinoma-in-situ-invasive-carcinoma-ffpe-1-standard-1-3-0}
}


@misc{10x2021prostate,
	title = {Normal Human Prostate (FFPE)},
	author = {{10x Genomics}},
	year = {2021},
	url = {https://www.10xgenomics.com/datasets/normal-human-prostate-ffpe-1-standard-1-3-0}
}


@misc{10x2022brain,
	title = {Mouse Brain Coronal Section 1 (FFPE)},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/mouse-brain-coronal-section-1-ffpe-2-standard}
}


@misc{10x2022cervical,
	title = {Human Cervical Cancer (FFPE)},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/human-cervical-cancer-1-standard}
}


@misc{10x2022olfactory,
	title = {Adult Mouse Olfactory Bulb},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/adult-mouse-olfactory-bulb-1-standard-1}
}


@misc{10x2022intestine,
	title = {Human Intestine Cancer (FPPE)},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/human-intestine-cancer-1-standard}
}


@misc{10x2022melanoma,
	title = {Human Melanoma, IF Stained (FFPE)},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/human-melanoma-if-stained-ffpe-2-standard}
}


@misc{10x2022prostate,
	title = {Human Prostate Cancer, Adjacent Normal Section with IF Staining (FFPE)},
	author = {{10x Genomics}},
	year = {2022},
	url = {https://www.10xgenomics.com/datasets/human-prostate-cancer-adjacent-normal-section-with-if-staining-ffpe-1-standard}
}


@misc{10x2023brain,
	title = {Human Brain Cancer, 11 mm Capture Area (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/human-brain-cancer-11-mm-capture-area-ffpe-2-standard}
}


@misc{10x2023colon,
	title = {Visium CytAssist Gene Expression Libraries of Post-Xenium Human Colon Cancer (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/visium-cytassist-gene-expression-libraries-of-post-xenium-human-colon-cancer-ffpe-using-the-human-whole-transcriptome-probe-set-2-standard}
}


@misc{10x2023colorectal,
	title = {Human Colorectal Cancer, 11 mm Capture Area (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/human-colorectal-cancer-11-mm-capture-area-ffpe-2-standard}
}


@misc{10x2023embryo,
	title = {Visium CytAssist, Mouse Embryo, 11 mm Capture Area (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/visium-cytassist-mouse-embryo-11-mm-capture-area-ffpe-2-standard}
}


@misc{10x2023kidney,
	title = {Human Kidney, 11 mm Capture Area (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/human-kidney-11-mm-capture-area-ffpe-2-standard}
}


@misc{10x2023lung,
	title = {Human Lung Cancer, 11 mm Capture Area (FFPE)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/human-lung-cancer-11-mm-capture-area-ffpe-2-standard}
}


@misc{10x2023mousebrain,
	title = {Visium CytAssist Gene Expression Libraries of Post-Xenium Mouse Brain (FF)},
	author = {{10x Genomics}},
	year = {2023},
	url = {https://www.10xgenomics.com/datasets/visium-cytassist-gene-expression-libraries-of-post-xenium-mouse-brain-ff-using-the-mouse-whole-transcriptome-probe-set-2-standard}
}


@article{agostinis2022newwave,
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	title = {NewWave: a scalable R/Bioconductor package for the dimensionality reduction and batch effect removal of single-cell {RNA}-seq data},
	journal = {Bioinformatics}
}


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}


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	pages = {706--715.e4},
	doi = {10.1016/j.cels.2021.05.006},
	url = {https://doi.org/10.1016/j.cels.2021.05.006}
}


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@string{apr = {Apr.}}


@string{aug = {Aug.}}


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}


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	title = {Viash: from scripts to pipelines},
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}


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}


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}


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}


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@article{lopez2022destvi,
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	author = {Romain Lopez and Baoguo Li and Hadas Keren-Shaul and Pierre Boyeau and Merav Kedmi and David Pilzer and Adam Jelinski and Ido Yofe and Eyal David and Allon Wagner and Can Ergen and Yoseph Addadi and Ofra Golani and Franca Ronchese and Michael I. Jordan and Ido Amit and Nir Yosef},
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}


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}


@article{luecken2022benchmarking,
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}


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	keywords = {Machine Learning (cs.LG), Information Retrieval (cs.IR), FOS: Computer and information sciences, FOS: Computer and information sciences}
}


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@string{mar = {Mar.}}


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@article{mcinnes2018umap,
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}