Datasets and supplemental information accompanying scANANSE
DOI10.5281/zenodo.7575107Zenodo7575107MaRDI QIDQ6681693FDOQ6681693
Dataset published at Zenodo repository.
Simon J van Heeringen, J.a. Arts, S. Frölich, Huiqing Jo Zhou, B.m.a. Heuts, R.r. Snabel, J.h.a. Martens, Jos Smits
Publication date: 16 December 2022
Copyright license: Creative Commons Attribution 4.0 International
This repository contains supplementary files from the paper: scANANSE: gene regulatory network and motif analysis of single-cell clustersas well as several accompanying datasets. The supplementary files: - Install_Rstudio.pdf - AnanseScanpy_equivalent.pdf The pre-processed Seuratobject and the two pre-processed Scanpy objectscan be used to run the scANANSE pipeline with: - preprocessed_PBMC.Rds - rna_PBMC.h5ad - atac_PBMC.h5ad Additionalraw data, used to construct the pre-processed objects,supplementedfrom: https://cf.10xgenomics.com/samples/cell-arc/1.0.0/pbmc_granulocyte_sorted_10k/pbmc_granulocyte_sorted_10k_filtered_feature_bc_matrix.h5, https://cf.10xgenomics.com/samples/cell-arc/1.0.0/pbmc_granulocyte_sorted_10k/pbmc_granulocyte_sorted_10k_atac_fragments.tsv.gz, https://cf.10xgenomics.com/samples/cell-arc/1.0.0/pbmc_granulocyte_sorted_10k/pbmc_granulocyte_sorted_10k_atac_fragments.tsv.gz.tbi, https://atlas.fredhutch.org/data/nygc/multimodal/pbmc_multimodal.h5seura
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