A Computational Pipeline for Bulk 'ATAC-Seq' Profiles
annotatePeaks
Example peaks from bone marrow of B6 mice
cinaR
color values
Differential Analyses
dot_plot
filterConsensus
GSEA
heatmap_differential
heatmap_var_peaks
HPEA
normalizeConsensus
pca_plot
prep_scATAC_cinaR
prep_scATAC_seurat
run_enrichment
scale_rows
show_comparisons
verboseFn
Immune modules
Differential analyses and Enrichment pipeline for bulk 'ATAC-seq' data analyses. This package combines different packages to have an ultimate package for both data analyses and visualization of 'ATAC-seq' data. Methods are described in 'Karakaslar et al.' (2021) <doi:10.1101/2021.03.05.434143>.
Useful links