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zijianni / SpotClean

R package for decontaminating the spot swapping effect and recovering true expression in spatial transcriptomics data
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install for R <= 4.1.3 #6

Closed alikhuseynov closed 2 years ago

alikhuseynov commented 2 years ago

Hi there, is it possible to install your package for R version <= 4.1.3 ?

ERROR: this R is version 4.1.3, package 'SpotClean' requires R >= 4.2.0

Many Thanks

alikhuseynov commented 2 years ago

just solved via devtools::install_github("zijianni/SpotClean", ref = "devel")

zijianni commented 2 years ago

Glad you figured it out! We set the restriction for using the latest R version as required by Bioconductor. Our package should still work under reasonably earlier R versions.

alikhuseynov commented 2 years ago

Hi, thanks. I could install it under R 4.1.3 and 4.2.0 in several conda env on a cluster. However on Rstudio server under R 4.0.2 it didn't work.

Error: object ‘spatialData’ is not exported by 'namespace:SpatialExperiment'

I think it has to do with the version of SpatialExperiment, that I cannot update from Bioconductor, nor from their github repo.

Biobase::package.version("SpatialExperiment")
[1] "1.0.0"