chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
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London: Nature Publishing Group UK
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English
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London: Nature Publishing Group UK
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ChromVar infers transcription-factor-associated accessibility from low-coverage or single-cell chromatin-accessibility data, thus enabling the clustering of cells and analysis of regulatory sequence motifs from sparse data sets.
Single-cell ATAC-seq (scATAC) yields sparse data that make conventional analysis challenging. We developed chromVAR (
http://www.github.com/GreenleafLab/chromVAR
), an R package for analyzing sparse chromatin-accessibility data by estimating gain or loss of accessibility within peaks sharing the same motif or annotation while controlling for technical biases. chromVAR enables accurate clustering of scATAC-seq profiles and characterization of known and
de novo
sequence motifs associated with va...
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Full title
chromVAR: inferring transcription-factor-associated accessibility from single-cell epigenomic data
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TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_5623146
Permalink
https://devfeature-collection.sl.nsw.gov.au/record/TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_5623146
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ISSN
1548-7091
E-ISSN
1548-7105
DOI
10.1038/nmeth.4401
