TFRegionLinks: Link TFs to regions using motifs and correlations between TF...
In yanwu2014/chromfunks: Functions for Analyzing Chromatin Accessibility Data
TFRegionLinks R Documentation
Link TFs to regions using motifs and correlations between TF motif activity and region accessibility
Description
Link TFs to regions using motifs and correlations between TF motif activity and region accessibility
Usage
TFRegionLinks(counts, embeddings, regions, bin.size = 50, n.cores = 4)
Arguments
counts
Single cell accessibility counts matrix (peaks by cells)
embeddings
Dimensionality reduction used to generate bins (cells by dimensions)
regions
Regions to link TFs to. If null will link TFs to all peaks.
bin.size
Number of cells per bin
n.cores
Number of cores
Value
Dataframe of TF to region links and the correlation between TF motif activity and accessibility
yanwu2014/chromfunks documentation built on Aug. 20, 2023, 9:17 a.m.
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| TFRegionLinks | R Documentation |
Link TFs to regions using motifs and correlations between TF motif activity and region accessibility
Description
Link TFs to regions using motifs and correlations between TF motif activity and region accessibility
Usage
TFRegionLinks(counts, embeddings, regions, bin.size = 50, n.cores = 4)
Arguments
counts |
Single cell accessibility counts matrix (peaks by cells) |
embeddings |
Dimensionality reduction used to generate bins (cells by dimensions) |
regions |
Regions to link TFs to. If null will link TFs to all peaks. |
bin.size |
Number of cells per bin |
n.cores |
Number of cores |
Value
Dataframe of TF to region links and the correlation between TF motif activity and accessibility
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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