pachterlab voyager issues

pachterlab / voyager

From geospatial to spatial -omics

https://pachterlab.github.io/voyager/

Artistic License 2.0

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issues

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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 opened 1 week ago
0
Local bivariate Moran's l (-log10p_adj Sim) look the same

#36 huiyijiangling opened 1 week ago
0
how to change color of plotLocalResult (remain spots with p < 0.05 only)

#35 huiyijiangling opened 1 week ago
1
A bug of Blank plots in workflow: Seurat V5 (with image) ->toSpatialFeatureExperiment -> plotSpatialFeature

#34 huiyijiangling opened 1 week ago
1
make VisiumHD vignettes

#33 alikhuseynov opened 1 month ago
0
proseg output support

#32 cstrlln opened 2 months ago
10
Vignette about multi-scale analyses

#31 lambdamoses opened 3 months ago
0
Joint count vignette

#30 lambdamoses opened 3 months ago
0
Plotting function just to show images without geometries

#29 lambdamoses closed 2 months ago
0
Add argument to `plotSpatialFeature` for whether to show axes

#28 lambdamoses closed 3 months ago
0
Vignette for Tomo-seq

#27 lambdamoses opened 4 months ago
0
Support `BioFormatsImage` and `EBImage` in `plotSpatialFeature`

#26 lambdamoses closed 2 months ago
1
Vignette using multiple samples

#25 lambdamoses opened 4 months ago
0
Write alt text for vignette figures

#24 lambdamoses opened 4 months ago
0
Plot scale bar when unit = "micron"

#23 lambdamoses opened 4 months ago
0
Option to plot only polygon outlines without fill in `plotColGeometry`

#22 lambdamoses closed 3 months ago
0
Option to plot image in a separate adjacent panel rather than behind cells/spots

#21 lambdamoses opened 5 months ago
0
Allow users to select any channel in images in plotting functions

#20 lambdamoses closed 2 months ago
0
Plot multiple grayscale images at once as different channels in `plotSpatialFeature` and related functions

#19 lambdamoses closed 2 months ago
0
Specify whether bivariate method in `SFEMethod` class is symmetric

#18 lambdamoses opened 5 months ago
0
Refactor `SFEMethods` to be more like `BlusParam`

#17 lambdamoses opened 5 months ago
0
Error when bbox is used

#16 alikhuseynov closed 7 months ago
3
Matrix >= 1.6.2 breaks Voyager

#15 rsbivand closed 7 months ago
2
Plot rowGeometries

#14 lambdamoses opened 9 months ago
8
Polygon boundaries showing despite linewidth = 0 in `plotSpatialFeature` on Windows

#13 lambdamoses closed 9 months ago
0
Can't plot spatial graph for one out of multiple samples

#12 lambdamoses closed 10 months ago
0
error in `geom_spi_rgb()` when using ` image_id` in `plotSpatialFeature()`

#11 alikhuseynov closed 10 months ago
7
Move colFeatureData and related functions to SFE package

#10 lambdamoses closed 3 months ago
1
Update Xenium vignette to use flagship data rather than prototype

#9 lambdamoses opened 10 months ago
0
Voyager utility

#8 chrkuo closed 10 months ago
1
References on documentation website

#7 lambdamoses closed 12 months 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