issues
search
pachterlab
/
voyager
From geospatial to spatial -omics
https://pachterlab.github.io/voyager/
Artistic License 2.0
79
stars
9
forks
source link
issues
Newest
Newest
Most commented
Recently updated
Oldest
Least commented
Least recently updated
Question re: running local moran I with different graph types / spot dropout
#40
spcdot
closed
2 days ago
2
New argument(s) in plotSpatialFeature to selectively plot cells or spots
#39
lambdamoses
opened
3 days ago
0
Clean up how parameters used to compute graphs and spatial stats are stored
#38
lambdamoses
closed
1 week ago
0
Errors in calculateBivariate:check_Ops_vector_arg_length(e, x_nrow, e_what = e_what, x_what = x_what): when the right operand is not a DelayedArray object (or derivative), its length cannot be greater than the first dimension of the left operand
#37
huiyijiangling
closed
3 months ago
2
Local bivariate Moran's l (-log10p_adj Sim) look the same
#36
huiyijiangling
closed
4 months ago
1
how to change color of plotLocalResult (remain spots with p < 0.05 only)
#35
huiyijiangling
closed
3 months ago
2
A bug of Blank plots in workflow: Seurat V5 (with image) ->toSpatialFeatureExperiment -> plotSpatialFeature
#34
huiyijiangling
opened
4 months ago
1
make VisiumHD vignettes
#33
alikhuseynov
opened
5 months ago
0
proseg output support
#32
cstrlln
opened
6 months ago
10
Vignette about multi-scale analyses
#31
lambdamoses
opened
8 months ago
0
Joint count vignette
#30
lambdamoses
opened
8 months ago
0
Plotting function just to show images without geometries
#29
lambdamoses
closed
6 months ago
0
Add argument to `plotSpatialFeature` for whether to show axes
#28
lambdamoses
closed
7 months ago
0
Vignette for Tomo-seq
#27
lambdamoses
opened
8 months ago
0
Support `BioFormatsImage` and `EBImage` in `plotSpatialFeature`
#26
lambdamoses
closed
6 months ago
1
Vignette using multiple samples
#25
lambdamoses
opened
8 months ago
2
Write alt text for vignette figures
#24
lambdamoses
opened
8 months ago
0
Plot scale bar when unit = "micron"
#23
lambdamoses
opened
8 months ago
0
Option to plot only polygon outlines without fill in `plotColGeometry`
#22
lambdamoses
closed
7 months ago
0
Option to plot image in a separate adjacent panel rather than behind cells/spots
#21
lambdamoses
opened
9 months ago
0
Allow users to select any channel in images in plotting functions
#20
lambdamoses
closed
6 months ago
0
Plot multiple grayscale images at once as different channels in `plotSpatialFeature` and related functions
#19
lambdamoses
closed
6 months ago
0
Specify whether bivariate method in `SFEMethod` class is symmetric
#18
lambdamoses
opened
9 months ago
0
Refactor `SFEMethods` to be more like `BlusParam`
#17
lambdamoses
closed
3 months ago
0
Error when bbox is used
#16
alikhuseynov
closed
11 months ago
3
Matrix >= 1.6.2 breaks Voyager
#15
rsbivand
closed
11 months ago
2
Plot rowGeometries
#14
lambdamoses
closed
3 months ago
10
Polygon boundaries showing despite linewidth = 0 in `plotSpatialFeature` on Windows
#13
lambdamoses
closed
1 year ago
0
Can't plot spatial graph for one out of multiple samples
#12
lambdamoses
closed
1 year ago
0
error in `geom_spi_rgb()` when using ` image_id` in `plotSpatialFeature()`
#11
alikhuseynov
closed
1 year ago
7
Move colFeatureData and related functions to SFE package
#10
lambdamoses
closed
7 months ago
1
Update Xenium vignette to use flagship data rather than prototype
#9
lambdamoses
closed
3 months ago
0
Voyager utility
#8
chrkuo
closed
1 year ago
1
References on documentation website
#7
lambdamoses
closed
1 year ago
0
plotColDataHistogram doesn't allow illegal symbols
#6
lambdamoses
closed
1 year ago
0
Transposing SFE object gets image and spots out of alignment
#5
lambdamoses
closed
1 year ago
1
could not find function "calculateBivariate"
#4
gakabani
closed
1 year ago
14
Forthcoming spdep release seems to break Voyager
#3
rsbivand
closed
1 year ago
3
read/load image-based spatial transcriptomics
#2
alikhuseynov
closed
1 year ago
18
Back to one repo
#1
lambdamoses
closed
1 year ago
0