dev-kidney-snATAC

Zhen Miao, Michael S. Balzer, Kim Lab & Susztak Lab, University of Pennsylvania

R Dependencies

The codes are based on R V.3.5.1. In addition, the following libraries will be required.

AUCell
biomaRt
cowplot
data.table
doMC
dplyr
GenomicRanges
ggplot2
htmlwidgets
monocle3
OneR
R2HTML
rbokeh
RColorBrewer
RcisTarget
SCENIC
Seurat
SnapATAC
SoupX
VisCello

Reference

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Miao Z*, Balzer MS*, Ma Z*, Liu H, Wu J, Shrestha R, Aranyi T, Kwan A, Kondo A, Pontoglio M, Kim J, Li M, Kaestner KH, Susztak K. "Single cell regulatory landscape of the mouse kidney highlights cellular differentiation programs and disease targets". Nature Communications 12,2277 (2021), doi:10.1038/s41467-021-22266-1