UCSC Cell Browser
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How to use this website
Interactive Tutorial
Setup your own cell browser
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Circle Size
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Colors
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Qualitative: Rainbow
Qualitative: Tatarize
Qualitative: Iwanthue
Semi-Qualitative: Paul Tol's
Gradient: shades of blue
Gradient: shades of red
Gradient: beige to red
Gradient: blue to red
Gradient: Viridis
Gradient: Magma
Gradient: Inferno
Gradient: Plasma
Annotation
Gene
Layout
Color by Annotation
batch
UMI Count
log1p_n_counts
Expressed Genes
log1p_n_genes
Percent Mitochond.
percent_ribo
percent_hb
percent_top50
CellType
CellType
Label by Annotation
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CellType
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Hover over a cell to update data below
Cells are selected. No update on hover.
index
batch
UMI Count
log1p n counts
Expressed Genes
log1p n genes
Percent Mitochond.
percent ribo
percent hb
percent top50
CellType
Color by Gene
Split on this gene
Multi Gene
Reset to default coloring
Recent Genes
Hover or select cells to update colors here
Click to color by gene
null
Dataset Genes
KRT17
KRT5
KLK3
KLK2
LCN2
RARRES1
S100P
KRT13
DCN
FBLN1
IGFBP7
C11orf96
IFI27
VIM
SRGN
TYROBP
Layout
umap_hm
pca
pca_hm
umap_hm
Circle size factor (1-7)
Transparency factor (1-7)
You can also change size and transparency with the sliders at the bottom right of the image
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Gene Expression Plots
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