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MarcElosua
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SPOTlight
Spatial Transcriptomics Capture Location Deconvolution
https://marcelosua.github.io/SPOTlight
GNU General Public License v3.0
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Subset Cells in ScatterPie
#117
ABauer26
opened
2 months ago
1
trainNMF error
#116
Lihyunseo
opened
5 months ago
7
HELP! imgData is not equal to the spatialcoords
#115
GODCALLMEGOD
opened
5 months ago
0
Scatterpie
#114
ljy-sys
opened
5 months ago
0
Error in .extract_coord(x = x, slice = slice, img = img) : !is.null(colnames(x)) is not TRUE
#113
Noralii
opened
5 months ago
1
How to annotate a spot as a type of cell
#112
M-jk22
closed
6 months ago
1
assay %in% SeuratObject：：Assays（x） is not TRUE
#111
628511miao
opened
8 months ago
2
Error from `.extract_counts()` when calling `SeuratObject::GetAssayData()` v5.0.1
#110
WuyangFF95
closed
9 months ago
1
Passing dataframe with NAs into plotCorrelationMatrix
#109
arrhenia
closed
9 months ago
1
Fixed Matrix version incompatible with SeuratObject
#108
lardenoije
closed
10 months ago
1
Questions about some details in paper
#107
NianzhenGu
closed
9 months ago
2
downsample_se_obj
#106
zhangmin513
closed
10 months ago
1
dplyr::mutate() Error
#105
ABauer26
closed
9 months ago
2
SPOTlight_1.0.0 on Bioconductor .zip cannot be downloaded
#104
feasiblee
closed
11 months ago
0
How to plot specific cell type proportions in the newest version of spotlight?
#103
awesomedeer
closed
9 months ago
1
Prepare for upcoming Seurat v5 release
#102
saketkc
closed
11 months ago
0
residuals of the sum of squares doesn't work for Seurat object
#101
MirDom
closed
11 months ago
2
scatter plot circles instead of sctter pie circles
#100
cathalgking
closed
11 months ago
1
Regarding the PBMC (GSE133549) dataset used in the method
#99
Han117
opened
1 year ago
1
In README.md the processed object can not find
#98
Han117
closed
9 months ago
2
Typofix
#97
federicomarini
closed
1 year ago
1
plotInteractions result meaning
#96
wang0430
opened
1 year ago
1
packages version
#95
caofy0307
closed
5 months ago
3
Q - Visium analysis - subset image and spot demultiplexing
#94
cathalgking
closed
9 months ago
5
assay %in% SeuratObject::Assays(x) is not TRUE
#93
wang0430
closed
1 year ago
1
plotSpatialScatterpie
#92
wang0430
closed
1 year ago
9
Error in `SeuratObject::GetAssayData()`:
#91
wang0430
closed
1 year ago
6
ST technology (the predecessor of 10X Visium technology)
#90
wang0430
closed
1 year ago
1
Error in .extract_counts(y, assay, slot) : !is.null(colnames(x)) is not TRUE
#89
carlosccfraga
closed
1 year ago
2
What does the 'decon_df' mean?
#88
White2album
closed
1 year ago
5
plotInteractions
#87
wang0430
closed
9 months ago
8
function plotSpatialScatterpie with image=TRUE does not work
#86
sondvo
opened
1 year ago
6
Error slot %in% SummarizedExperiment::assayNames(x) is not TRUE
#85
williamsdrake
closed
9 months ago
3
Parallel run
#84
BenjaminDEMAILLE
closed
1 year ago
2
Error in trainNMF(x = x, y = y, groups = groups, mgs = mgs, n_top = n_top, : ids %in% names(mgs) are not TRUE
#83
BenjaminDEMAILLE
closed
1 year ago
2
test_spot_fun
#82
umar1196
closed
1 year ago
2
ERROR: dependency ‘arrangements’ is not available for package ‘SPOTlight’
#81
galaxyeee
closed
1 year ago
4
Does the new version of SPOTlight no longer support data from Seurat?
#80
Lukadon77
closed
1 year ago
1
SPOTlight with low numbers of genes per spot
#79
sdwien
closed
1 year ago
1
Difference between cell type correlation and cell communication
#78
wang0430
closed
1 year ago
1
colData(sc_data)$subclass
#77
wang0430
closed
1 year ago
1
export SPOTlight results to 10x Genomics Loupe Browser
#76
sdwien
closed
1 year ago
3
Convert mgs to data.frame
#75
nesilin
closed
1 year ago
1
SPOTlight function crashes R studio session
#74
sokratiag
closed
1 year ago
4
Problem on spotlight_deconvolution(old version)
#73
tewengtong
closed
1 year ago
1
Suspected incorrect variable names used in vignette
#72
Nick-Eagles
closed
2 years ago
1
Deconvolution cannot identify tumor cell type in tumor spatial data
#71
hansong798
closed
9 months ago
2
Issue plotSpatialScatterpie with a SpatialExperiment object
#70
Zifeng-L
closed
1 year ago
3
deconvolution with the same reference
#69
MigleMi
closed
1 year ago
7
problem with plotTopicProfiles: Error in plotTopicProfiles(x = mod, y = sce$Cell_Type, facet = FALSE, : is(x, "NMFfit") is not TRUE
#68
ultimatex5
closed
2 years ago
3
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