issues
search
Nanostring-Biostats
/
SpatialDecon
The SpatialDecon library implements the SpatialDecon algorithm for mixed cell deconvolution in spatial gene expression datasets. (This algorithm also works in bulk expression profiling data.)
MIT License
33
stars
8
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
t() incompatibility with sparseMatrix
#60
mgrout81
opened
4 months ago
1
Error in X[sharedgenes, ] : incorrect number of dimensions
#59
mnabdelnabi
closed
4 months ago
1
seurat v5 updates
#58
maddygriz
closed
10 months ago
3
About safeTME
#57
ydai3
opened
1 year ago
1
Error in running runspatialdecon
#56
ydai3
opened
1 year ago
1
Gene expression within each cell type
#55
manjumoorthy95
opened
1 year ago
1
Top genes driving deconvolution for each cell type?
#54
apredeus
closed
1 year ago
2
How to generate a UMAP/tSNE from reverseDecon object
#53
PietropaoliLab
opened
1 year ago
1
How to enable multicore processing and verbosity
#52
borexino
opened
1 year ago
1
geometric mean of Negprobes
#51
RM83
opened
1 year ago
1
Error on runspatialdecon and spatialdecon - Only 3 genes are shared between norm and X - this may not be enough to support accurate deconvolution
#50
borexino
closed
1 year ago
2
Spatial decon visium issue
#49
chrkuo
closed
1 year ago
1
Overlay Florets with Spatial Images
#48
scSeqLiubice
opened
1 year ago
1
Update nsclc test dataset
#47
maddygriz
closed
1 year ago
0
small doc changes from GitHub issues
#46
maddygriz
closed
1 year ago
1
Enquiry about loading "nsclc" dataset
#45
jd10020
closed
1 year ago
5
Confusing details in create_profile_matrix documentation
#44
oospina
closed
1 year ago
2
Error when running spatialdecon() on COSMx data
#43
hcurley
opened
2 years ago
1
Error: NaNs produced, Unsuccessful Convergence
#42
Goralsth
opened
2 years ago
1
Norm matrix from raw matrix and NegProbes
#41
cnk113
opened
2 years ago
1
update error messages
#40
maddygriz
closed
2 years ago
0
Updated logNormReg
#39
maddygriz
closed
2 years ago
0
Deconvoltion of Visium slides- Only the heatmap can show the results
#38
moutazhelal
opened
2 years ago
4
Minimum number of genes per phenotype for Spatial Decon
#37
lisaGUZZI
opened
2 years ago
1
Error in Differential Expression testing after spatialdecon and reverseDecon
#36
gianfilippo
opened
2 years ago
7
Add check for log normalized data
#35
maddygriz
opened
2 years ago
0
deconvolute bulk RNAseq data
#34
caylamason
opened
2 years ago
1
Unsuccessful convergence
#33
aelhossiny
closed
2 years ago
2
Which count matrix to use for creating custom cell profile matrix?
#32
aelhossiny
closed
2 years ago
3
Unexpected uniform florets
#31
oligomyeggo
closed
2 years ago
12
Using SpatialDecon to analyze Visium data
#30
rocketeer1998
opened
2 years ago
2
Add Spatial to biocViews in description
#29
maddygriz
closed
2 years ago
0
Extract NCSLC dataset and make as data package
#28
maddygriz
opened
2 years ago
0
Add error message for invalid Age_Group
#27
maddygriz
closed
2 years ago
0
CIBERSORT LM22 signature
#26
yeswzc
closed
2 years ago
4
Allow gene matching by ID
#25
maddygriz
opened
2 years ago
0
Update figures
#24
maddygriz
opened
3 years ago
0
finish removing logNormReg
#23
maddygriz
closed
3 years ago
0
Debug lognormreg update
#22
maddygriz
closed
3 years ago
0
Update deconLNR to be compatible with logNormReg v0.4.0
#21
maddygriz
closed
1 year ago
4
v1.3 release
#20
maddygriz
closed
3 years ago
0
V1.3 release
#19
maddygriz
closed
3 years ago
0
upload S4wrappers
#18
Maggieer01
closed
3 years ago
1
Create custom profile matrix
#17
maddygriz
closed
3 years ago
1
relax required R version
#16
andrewrech
closed
2 years ago
0
Version 1.3 - revisions for journal
#15
patrickjdanaher
closed
3 years ago
1
Update download matrix
#14
patrickjdanaher
closed
3 years ago
0
download new matrices
#13
maddygriz
closed
3 years ago
1
error when running thousands of samples
#12
patrickjdanaher
opened
3 years ago
0
Error when n_tumor_clusters set to 1
#11
patrickjdanaher
opened
3 years ago
0
Next