Files in stemangiola/ttSc

Friendly tidy wrappers for facilitating transcriptional analyses

R/IKAP.R R/functions_sc.R R/methods.R R/nanny.R R/utilities.R README.Rmd README.md dev/dplyr_methods.R dev/tidyr_methods.R man/add_adjusted_counts_for_unwanted_variation_sc.Rd man/add_assay.Rd man/add_attr.Rd man/add_cell_cycle_annotation_sc.Rd man/add_cell_type_annotation_sc.Rd man/add_class.Rd man/add_cluster_annotation_SNN_sc.Rd man/add_doublet_classification_sc.Rd man/add_mitochndrion_transcription_abundance_sc.Rd man/add_normalised_counts_sc.Rd man/add_reduced_dimensions_PCA.Rd man/add_reduced_dimensions_TSNE.Rd man/add_reduced_dimensions_UMAP.Rd man/add_rotated_dimensions_sc.Rd man/add_variable_genes_classification.Rd man/adjust_abundance.Rd man/aggregate_cells-Seurat-method.Rd man/aggregate_cells-SingleCellExperiment-method.Rd man/aggregate_cells-methods.Rd man/aggregate_duplicated_transcripts_sc.Rd man/aggregate_duplicated_transcripts_wide_sc.Rd man/aggregate_duplicates.Rd man/annotate_symbol.Rd man/as_matrix.Rd man/cluster_elements.Rd man/create_seurat_from_tibble.Rd man/create_seurat_from_tibble_wide.Rd man/create_tt_from_cellRanger_sc.Rd man/create_tt_from_seurat.Rd man/create_tt_from_tibble_sc.Rd man/create_tt_from_tibble_wide_sc.Rd man/deconvolve_cellularity.Rd man/do_integration_seurat.Rd man/drop_assay.Rd man/drop_attr.Rd man/drop_class.Rd man/error_if_counts_is_na.Rd man/error_if_duplicated_genes.Rd man/error_if_log_transformed.Rd man/error_if_wrong_input.Rd man/extract_abundance.Rd man/get_abundance_sc_long.Rd man/get_abundance_sc_wide.Rd man/get_adjusted_counts_for_unwanted_variation_sc.Rd man/get_cell.Rd man/get_cell_cycle_annotation_sc.Rd man/get_cell_type_annotation_sc.Rd man/get_cluster_annotation_SNN_automatic.Rd man/get_cluster_annotation_SNN_sc.Rd man/get_mitochndrion_transcription_abundance_sc.Rd man/get_normalised_counts_sc.Rd man/get_reduced_dimensions_PCA.Rd man/get_reduced_dimensions_TSNE.Rd man/get_reduced_dimensions_UMAP.Rd man/get_rotated_dimensions_sc.Rd man/hello.Rd man/ifelse2_pipe.Rd man/ifelse3_pipe.Rd man/ifelse_pipe.Rd man/iterate_cell_cycle_scoreing.Rd man/merged_tt_object.Rd man/parse_formula.Rd man/prepend.Rd man/reduce_dimensions.Rd man/remove_redundancy.Rd man/rename_sample_if_samples_not_set_by_user.Rd man/rotate_dimensions.Rd man/scale_abundance.Rd man/scale_design.Rd man/select_closest_pairs.Rd man/set_default_assay_seurat.Rd man/test_differential_abundance.Rd man/tidysc.Rd man/tidysc_cell_ranger.default.Rd man/update_object_sc.Rd tests/testthat.R tests/testthat/test-sc.R vignettes/introduction.Rmd