issues
search
JEFworks-Lab
/
STdeconvolve
Reference-free cell-type deconvolution of multi-cellular spatially resolved transcriptomics data
http://jef.works/STdeconvolve/
99
stars
11
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
dependency 'liger' is not available
#59
LX2006
closed
1 week ago
2
Error with annotateCellTypesGSEA function
#58
odunola26
opened
1 month ago
4
How to add cell types to deconvoluted 10x Visium data?
#57
532at
opened
1 month ago
3
'x' must be an array of at least two dimensions error
#56
wangjiawen2013
opened
2 months ago
1
Question about STdeconvolve: MOB layer transcriptional profiles
#55
ZZYMaxwell
opened
3 months ago
1
Inconsistencies with Louvain Clustering
#54
rln0005
closed
3 months ago
3
InferCNV from STdeconvolve data
#53
rstagnit
opened
3 months ago
1
Error when using annotateCellTypesGSEA
#52
d-henness
opened
5 months ago
3
How do i view all log2fc gene.
#51
M454yuki
closed
3 months ago
2
Visium 'se' object creation error
#50
Umaarasu
opened
5 months ago
3
Adding deconvolved cell types to Seurat `meta.data`
#49
shaniAmare
closed
3 months ago
1
mOB dataset
#48
caucheteux
closed
3 months ago
2
ST deconvolve analyses with replicates
#47
dcare91
closed
3 months ago
3
Analyze specific area of the slide
#46
chfloudas
closed
7 months ago
4
How to know what are topics when plotting pie charts on that pixel?
#45
Shikari666
closed
7 months ago
1
Clustering a specific cell type
#44
Dillon214
closed
3 months ago
1
Match annotation and deconvolved cell types
#43
xieaq
opened
9 months ago
5
Cell type specific counts, and testing between conditions
#42
Dillon214
closed
9 months ago
1
scatter plot circles instead of sctter pie circles
#41
cathalgking
closed
9 months ago
1
choosing the optimal number of "Ks"
#40
cathalgking
closed
10 months ago
6
Visium image is flipped - mirror symmetry
#39
cathalgking
closed
10 months ago
15
Superimpose scatterpies on an H&E image
#38
peleg555
closed
1 year ago
1
Integrated Object Visualization
#37
inhyeoklee
closed
1 year ago
1
Cell-type Annotation with STdeconvolve outputs
#36
inhyeoklee
closed
1 year ago
14
Giotto Object to STdeconvolve, and general questions about workflow, choosing K, cell type annotation, etc
#35
chrkuo
opened
1 year ago
12
Cell volumes for MPOA reproduction
#34
paulmorio
opened
1 year ago
5
From STdeconvolve/docs/visium_10x.md. Error when call function CleanCounts()
#33
sondvo
closed
1 year ago
2
How to work on Slide-seq adata object?
#32
ShaowenJ
closed
1 year ago
5
How to make annote on my own data?
#31
Knight1995
closed
1 year ago
1
merge from devel: added vignette on combining datasets and some small aesthetics to plotting
#30
bmill3r
closed
1 year ago
0
Could not find function "simulateBregmaSpots"
#29
LYxiaotai
opened
1 year ago
2
Visualization-deconvolved cell types
#28
Pedramto89
closed
1 year ago
5
deconvolved cell-types to seurat object
#27
AteeqMKhaliq
closed
1 year ago
5
About loading 10X data
#26
Pedramto89
closed
1 year ago
6
Using stdeconvolve with normalized / integrated data
#25
Acaro12
opened
1 year ago
6
Error in asMethod(object) : Cholmod error 'problem too large' at file
#24
AteeqMKhaliq
closed
1 year ago
9
Combination of STdeconvolve with BayesSpace
#23
Acaro12
closed
1 year ago
2
Question related to 10x Visium STdeconvolve
#22
JoyOtten
closed
1 year ago
1
integrated Object
#21
AteeqMKhaliq
closed
1 year ago
11
STdeconvolve on multiple sections at the same time
#20
JoyOtten
closed
1 year ago
1
How to annotate cells in the STdeconvolve
#19
ysq1770368148
opened
1 year ago
6
The order of MPOB slices
#18
leihouyeung
closed
1 year ago
1
The differentially expressed genes for each deconvolved cell-type
#17
ShawnXzz
closed
2 years ago
2
STdeconvolve
#16
cloony2020
closed
2 years ago
0
jef.works/stdeconvolve/
#15
cloony2020
closed
2 years ago
0
STdeconvolve and Seurat
#14
nsdelablancac
closed
2 years ago
1
Question about MERFISH benchmarking
#13
leihouyeung
closed
2 years ago
1
vizAllTopics "groups" parameter not working correctly
#12
oligomyeggo
closed
2 years ago
12
Mismatching when trying to reproduce 10x Visium Coronal Mouse Brain tutorial
#11
sokratiag
closed
2 years ago
2
Error when running “vizAllTopics”
#10
ShawnXzz
closed
2 years ago
3
Next