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Development status

Source: vignettes/development_status.Rmd
development_status.Rmd

The following tables show the status of the implementation of each feature in the package:

Objects

HDF5AnnData

Slot Getter Getter test Setter Setter test
layers ✅ ✅ ✅ ✅
obs ✅ ✅ ✅ ✅
obs_names ✅ ✅ ✅ ✅
obsm ✅ ✅ ✅
obsp ✅ ✅
raw
uns ✅ ✅
var ✅ ✅ ✅ ✅
var_names ✅ ✅ ✅ ✅
varm ✅ ✅ ✅
varp ✅ ✅
X ✅ ✅ ✅ ✅

InMemoryAnnData

Slot Getter Getter test Setter Setter test
layers ✅ ✅ ✅ ✅
obs ✅ ✅ ✅ ✅
obs_names ✅ ✅ ✅ ✅
obsm ✅ ✅
obsp ✅ ✅
raw
uns ✅ ✅
var ✅ ✅ ✅ ✅
var_names ✅ ✅ ✅ ✅
varm ✅ ✅
varp ✅ ✅
X ✅ ✅ ✅ ✅

Conversion

SingleCellExperiment

Slot From From test To To test
layers ✅ ✅ ✅ ✅
obs ✅ ✅ ✅ ✅
obs_names ✅ ✅ ✅ ✅
obsm ✅ 🚧 ✅ 🚧
obsp ✅ ✅ ✅ ✅
raw
uns ✅ ✅ ✅ ✅
var ✅ ✅ ✅ ✅
var_names ✅ ✅ ✅ ✅
varm ✅ 🚧 ✅ 🚧
varp ✅ ✅ ✅ ✅
X ✅ ✅

Seurat

Slot From From test To To test
layers ✅ ✅ ✅ ✅
obs ✅ ✅ ✅ ✅
obs_names ✅ ✅ ✅ ✅
obsm ✅ 🚧 ✅ 🚧
obsp ✅ ✅ ✅
raw
uns ✅ ✅ ✅ ✅
var ✅ ✅ ✅ ✅
var_names ✅ ✅ ✅ ✅
varm ✅ 🚧 ✅ 🚧
varp ✅
X ✅ ✅

Session info 

## R version 4.5.1 (2025-06-13)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 24.04.2 LTS
## 
## Matrix products: default
## BLAS:   /usr/lib/x86_64-linux-gnu/openblas-pthread/libblas.so.3 
## LAPACK: /usr/lib/x86_64-linux-gnu/openblas-pthread/libopenblasp-r0.3.26.so;  LAPACK version 3.12.0
## 
## locale:
##  [1] LC_CTYPE=C.UTF-8       LC_NUMERIC=C           LC_TIME=C.UTF-8       
##  [4] LC_COLLATE=C.UTF-8     LC_MONETARY=C.UTF-8    LC_MESSAGES=C.UTF-8   
##  [7] LC_PAPER=C.UTF-8       LC_NAME=C              LC_ADDRESS=C          
## [10] LC_TELEPHONE=C         LC_MEASUREMENT=C.UTF-8 LC_IDENTIFICATION=C   
## 
## time zone: UTC
## tzcode source: system (glibc)
## 
## attached base packages:
## [1] stats     graphics  grDevices utils     datasets  methods   base     
## 
## other attached packages:
## [1] tidyr_1.3.1     dplyr_1.1.4     purrr_1.0.4     stringr_1.5.1  
## [5] rprojroot_2.0.4 knitr_1.50      tibble_3.3.0   
## 
## loaded via a namespace (and not attached):
##  [1] vctrs_0.6.5       cli_3.6.5         rlang_1.1.6       xfun_0.52        
##  [5] stringi_1.8.7     generics_0.1.4    textshaping_1.0.1 jsonlite_2.0.0   
##  [9] glue_1.8.0        htmltools_0.5.8.1 ragg_1.4.0        sass_0.4.10      
## [13] rmarkdown_2.29    evaluate_1.0.4    jquerylib_0.1.4   fastmap_1.2.0    
## [17] yaml_2.3.10       lifecycle_1.0.4   compiler_4.5.1    fs_1.6.6         
## [21] pkgconfig_2.0.3   htmlwidgets_1.6.4 systemfonts_1.2.3 digest_0.6.37    
## [25] R6_2.6.1          tidyselect_1.2.1  pillar_1.11.0     magrittr_2.0.3   
## [29] bslib_0.9.0       withr_3.0.2       tools_4.5.1       pkgdown_2.1.3    
## [33] cachem_1.1.0      desc_1.4.3