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ZENODO
Dataset . 2023
License: CC BY
Data sources: Datacite
ZENODO
Dataset . 2023
License: CC BY
Data sources: Datacite
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PyVIPER: A fast and scalable Python package for rank-based enrichment analysis of single-cell RNASeq data

Authors: Wang, Alexander L.E.; Zizhao, Lin; Zanella, Luca; Vlahos, Lukas; Anglada Girotto, Miquel; Zafar, Aziz; Califano, Andrea; +1 Authors

PyVIPER: A fast and scalable Python package for rank-based enrichment analysis of single-cell RNASeq data

Abstract

Data Repository for VIPER analysis in Python. These data are used in Tutorials of the PyVIPER package. All files were generated by post-processing publicly available data from pancreatic ductal adenocarcinoma (PDAC) patients by Peng et al., 2019. The files included are: B-cell-net.tsv: ARACNe3-inferred gene regulatory network for B cells in PDAC ductal-2-net.tsv: ARACNe3-inferred gene regulatory network for malignant ductal cell type 2 in PDAC fibroblast-net.tsv: ARACNe3-inferred gene regulatory network for fibroblasts in PDAC stellate-net.tsv: ARACNe3-inferred gene regulatory network for stellate cells in PDAC Tutorial_1_gExpr_fibroblast_5802.tsv.gz: gene expression signature calculated for 5802 cells (fibroblasts) used in Tutorial 1 Tutorial_2_counts_mixed_4632.tsv.gz: UMI matrix for 4632 cells from different cellular populations used in Tutorial 2 Tutorial_2_metadata_mixed_4632.tsv.gz: metadata for 4632 cells from different cellular populations used in Tutorial 2 Files in .pkl format are the ARACNe3-inferred gene regulatory networks for the specific cell population in PDAC in .pkl format

  • BIP!
    Impact byBIP!
    selected citations
    These citations are derived from selected sources.
    This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
    0
    popularity
    This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
    Average
    influence
    This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
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    impulse
    This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average