Files in andreaskapou/SeuratPipe
Packaging common Seurat analysis tasks
.Rbuildignore
.github/.gitignore
.github/workflows/pkgdown.yaml
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/SeuratPipe_package.R
R/analysis.R
R/pipeline.R
R/spatial_analysis.R
R/utils.R
R/utils_plot.R
README.md
_pkgdown.yml
inst/CITATION
inst/NEWS.Rd
inst/figures/sp-cl-fig1-1.png
inst/figures/sp-cl-fig2-1.png
inst/figures/sp-cl-fig3-1.png
inst/figures/sp-cl-fig4-1.png
inst/figures/sp-cl-fig5-1.png
inst/figures/sp-cl-fig7-1.png
inst/figures/sp-cl-fig8-1.png
inst/figures/sp-har-fig1-1.png
inst/figures/sp-har-fig2-1.png
inst/figures/sp-har-fig3-1.png
man/SeuratPipe.Rd
man/add_umap_embedding.Rd
man/cluster_analysis.Rd
man/compute_module_score.Rd
man/create_seurat_object.Rd
man/dim_plot.Rd
man/dim_plot_tailored.Rd
man/dimred_qc_plots.Rd
man/dot_plot.Rd
man/feature_plot.Rd
man/feature_plot_tailored.Rd
man/find_all_markers.Rd
man/find_clusters.Rd
man/find_neighbors.Rd
man/harmony_analysis.Rd
man/heatmap_plot.Rd
man/install_scrublet.Rd
man/lognormalize_and_pca.Rd
man/module_score_analysis.Rd
man/pca_feature_cor_plot.Rd
man/qc_filter_seurat_object.Rd
man/run_cluster_pipeline.Rd
man/run_harmony.Rd
man/run_harmony_pipeline.Rd
man/run_qc_pipeline.Rd
man/run_spatial_qc_pipeline.Rd
man/run_umap.Rd
man/scatter_meta_plot.Rd
man/spatial_create_seurat_object.Rd
man/spatial_dim_plot.Rd
man/spatial_feature_plot.Rd
man/subset_dim_plot.Rd
man/subset_feature_plot.Rd
tests/testthat.R
tests/testthat/test-utils.R
vignettes/SeuratPipe.Rmd
vignettes/figure/sp-cl-fig1-1.png
vignettes/figure/sp-cl-fig2-1.png
vignettes/figure/sp-cl-fig3-1.png
vignettes/figure/sp-cl-fig4-1.png
vignettes/figure/sp-cl-fig5-1.png
vignettes/figure/sp-cl-fig7-1.png
vignettes/figure/sp-cl-fig8-1.png
vignettes/figure/sp-har-fig1-1.png
vignettes/figure/sp-har-fig2-1.png
vignettes/figure/sp-har-fig3-1.png
