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LieberInstitute
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spatialDLPFC
spatialDLPFC project involving Visium (n = 30), Visium SPG (n = 4) and snRNA-seq (n = 19) samples
http://research.libd.org/spatialDLPFC/
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Where can I get the full size H&E images?
#146
amssljc
opened
2 weeks ago
3
Download of Histology Image of Visium(n=30) data
#145
Weiqin-Zhao
opened
1 month ago
1
Update Samui Browser & VistoSeg citations
#144
lcolladotor
closed
3 months ago
0
manual annotation
#143
JiawenChenn
closed
3 months ago
2
Provide anndata files out of the box
#142
chaichontat
closed
1 year ago
1
Supplementary Table Export
#141
lahuuki
closed
1 year ago
10
Explore _position_ enrichment results
#140
lcolladotor
closed
1 year ago
6
Add Melissa' & Prashanthi's code to this repo
#139
lcolladotor
closed
1 year ago
8
Supp fig: spatial location of manually annotated tissue imperfections
#138
lcolladotor
closed
1 year ago
2
Add tissue imperfections to R object + spatialLIBD app
#137
lcolladotor
closed
1 year ago
9
Make SPOTlight results reproducible + use all input snRNA-seq data
#136
lcolladotor
closed
1 year ago
1
Fix Spatial Plot Dimensions
#135
lahuuki
closed
1 year ago
1
To add integrated analysis of Tangram results with datadriven spatial domain
#134
boyiguo1
closed
1 year ago
0
Inconsistent naming convention for Brain positions in the raw cluster results
#133
boyiguo1
closed
1 year ago
4
snRNA Cell-cell Communication Results
#132
boyiguo1
closed
1 year ago
3
Test cell type composition acrosss anterior, mid, posterior
#131
boyiguo1
closed
1 year ago
4
Cell-cell communication of Visium data
#130
boyiguo1
closed
1 year ago
3
Deconvolution: Visium data
#129
lcolladotor
closed
1 year ago
1
Deconvolution: Visium IF data
#128
lcolladotor
closed
1 year ago
1
Explore deconvolution marker genes (mean ratio)
#127
lcolladotor
closed
1 year ago
0
Density and/or proportion changes for each cell type across region
#126
lcolladotor
closed
1 year ago
2
Region white-matter enrichment trends
#125
lcolladotor
closed
1 year ago
7
Region differential expression without white matter
#124
abspangler13
closed
1 year ago
0
New Figure 3
#123
abspangler13
closed
1 year ago
8
spatial registration of psychENCODE Data
#122
abspangler13
closed
1 year ago
3
spatial registration of psychE
#121
abspangler13
closed
2 years ago
0
Update PCA plots for the region analysis
#120
lcolladotor
closed
2 years ago
1
spatially variable genes (svgs)
#119
abspangler13
closed
1 year ago
5
Gene ontology
#118
abspangler13
closed
1 year ago
5
spatial registration of snRNAseq data
#117
abspangler13
closed
1 year ago
2
Figure 3 other summary plots
#116
abspangler13
closed
2 years ago
0
Figure 3 enrichment heatmap
#115
abspangler13
closed
1 year ago
2
Updates and fixes to k = 9 and k = 16 shiny apps
#114
abspangler13
closed
2 years ago
0
Extract new clinical gene sets from the literature
#113
kmaynard12
closed
1 year ago
6
Merge github history from snRNA-seq processing into this repo
#112
lcolladotor
closed
2 years ago
2
Replicate clinical enrichment results
#111
lcolladotor
closed
2 years ago
2
make k = 16 shiny app for Kristen
#110
abspangler13
closed
2 years ago
1
sfigu_Bayespace
#109
kmaynard12
closed
2 years ago
0
sfigu_k=2_hist
#108
kmaynard12
closed
2 years ago
0
sfigu_harmony
#107
kmaynard12
closed
2 years ago
0
sfigu_marker_genes
#106
kmaynard12
closed
2 years ago
0
Demographic Table
#105
kmaynard12
closed
1 year ago
2
Fig 2 Cluster registration schematic
#104
kmaynard12
closed
2 years ago
0
Figure_2 Polish
#103
kmaynard12
closed
2 years ago
2
re-make pseudobulked objects
#102
abspangler13
closed
2 years ago
0
MAGMA clinical enrichment analysis
#101
lcolladotor
closed
1 year ago
3
Process psychENCODE datasets
#100
lcolladotor
closed
1 year ago
10
Compare spot-deconvolution vs IF cell counts
#99
lcolladotor
closed
1 year ago
6
Update Visium and Visium IF shiny apps with deconvolution results
#98
lcolladotor
closed
1 year ago
8
Spot deconvolution: cell2location option
#97
lcolladotor
closed
1 year ago
1
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