| %>% |
Man page
|
| .as_SummarizedExperiment |
Source code
|
| .describe_transcript_SE |
Man page
|
| .onAttach |
Source code
|
| .tidybulk |
Source code
|
| .tidybulk_se |
Source code
|
| CoreAlg |
Source code
|
| X_cibersort |
Man page
|
| adjust_abundance |
Man page
|
| adjust_abundance,RangedSummarizedExperiment-method |
Man page
|
| adjust_abundance,SummarizedExperiment-method |
Man page
|
| adjust_abundance,spec_tbl_df-method |
Man page
|
| adjust_abundance,tbl_df-method |
Man page
|
| adjust_abundance,tidybulk-method |
Man page
|
| aggregate_duplicates |
Man page
|
| aggregate_duplicates,RangedSummarizedExperiment-method |
Man page
|
| aggregate_duplicates,SummarizedExperiment-method |
Man page
|
| aggregate_duplicates,spec_tbl_df-method |
Man page
|
| aggregate_duplicates,tbl_df-method |
Man page
|
| aggregate_duplicates,tidybulk-method |
Man page
|
| arrange |
Man page
|
| arrange.tidybulk |
Source code
|
| as_SummarizedExperiment |
Man page
|
| as_SummarizedExperiment,spec_tbl_df-method |
Man page
|
| as_SummarizedExperiment,tbl_df-method |
Man page
|
| as_SummarizedExperiment,tidybulk-method |
Man page
|
| as_data_frame |
Source code
|
| as_matrix |
Man page
|
| as_tibble |
Man page
|
| bind_cols |
Man page
|
| bind_cols.tidybulk |
Source code
|
| bind_rows |
Man page
|
| bind_rows.tidybulk |
Source code
|
| breast_tcga_mini_SE |
Man page
|
| call_core |
Source code
|
| check_if_attribute_present |
Source code
|
| check_if_column_missing |
Source code
|
| check_if_counts_is_na |
Man page
Source code
|
| check_if_data_rectangular |
Source code
|
| check_if_duplicated_genes |
Man page
Source code
|
| check_if_transcript_is_na |
Source code
|
| check_if_wrong_input |
Man page
Source code
|
| cluster_elements |
Man page
|
| cluster_elements,RangedSummarizedExperiment-method |
Man page
|
| cluster_elements,SummarizedExperiment-method |
Man page
|
| cluster_elements,spec_tbl_df-method |
Man page
|
| cluster_elements,tbl_df-method |
Man page
|
| cluster_elements,tidybulk-method |
Man page
|
| column_type_checking |
Source code
|
| counts_ensembl |
Man page
|
| create_tt_from_bam_sam_bulk |
Source code
|
| create_tt_from_tibble_bulk |
Source code
|
| deconvolve_cellularity |
Man page
|
| deconvolve_cellularity,RangedSummarizedExperiment-method |
Man page
|
| deconvolve_cellularity,SummarizedExperiment-method |
Man page
|
| deconvolve_cellularity,spec_tbl_df-method |
Man page
|
| deconvolve_cellularity,tbl_df-method |
Man page
|
| deconvolve_cellularity,tidybulk-method |
Man page
|
| describe_transcript |
Man page
|
| describe_transcript,RangedSummarizedExperiment-method |
Man page
|
| describe_transcript,SummarizedExperiment-method |
Man page
|
| describe_transcript,spec_tbl_df-method |
Man page
|
| describe_transcript,tbl_df-method |
Man page
|
| describe_transcript,tidybulk-method |
Man page
|
| distinct |
Man page
|
| do |
Man page
|
| doPerm |
Source code
|
| eliminate_GRanges_metadata_columns_also_present_in_Rowdata |
Source code
|
| eliminate_sparse_transcripts |
Source code
|
| ensembl_symbol_mapping |
Man page
|
| ensembl_to_symbol |
Man page
|
| ensembl_to_symbol,spec_tbl_df-method |
Man page
|
| ensembl_to_symbol,tbl_df-method |
Man page
|
| ensembl_to_symbol,tidybulk-method |
Man page
|
| error_if_counts_is_na |
Source code
|
| error_if_data_is_not_rectangular |
Source code
|
| error_if_duplicated_genes |
Source code
|
| error_if_log_transformed |
Source code
|
| error_if_wrong_input |
Source code
|
| fill_missing_abundance |
Man page
|
| fill_missing_abundance,spec_tbl_df-method |
Man page
|
| fill_missing_abundance,tbl_df-method |
Man page
|
| fill_missing_abundance,tidybulk-method |
Man page
|
| filter |
Man page
|
| flybaseIDs |
Man page
|
| full_join |
Man page
|
| get_bibliography |
Man page
|
| get_bibliography,RangedSummarizedExperiment-method |
Man page
|
| get_bibliography,SummarizedExperiment-method |
Man page
|
| get_bibliography,spec_tbl_df-method |
Man page
|
| get_bibliography,tbl-method |
Man page
|
| get_bibliography,tbl_df-method |
Man page
|
| get_bibliography,tidybulk-method |
Man page
|
| get_clusters_kmeans_bulk_SE |
Source code
|
| get_reduced_dimensions_UMAP_bulk |
Man page
|
| get_reduced_dimensions_UMAP_bulk_SE |
Man page
|
| get_special_datasets |
Source code
|
| glmmTMB_to_confidence_intervals_random_effects |
Source code
|
| group_by |
Man page
|
| identify_abundant |
Man page
|
| identify_abundant,RangedSummarizedExperiment-method |
Man page
|
| identify_abundant,SummarizedExperiment-method |
Man page
|
| identify_abundant,spec_tbl_df-method |
Man page
|
| identify_abundant,tbl_df-method |
Man page
|
| identify_abundant,tidybulk-method |
Man page
|
| ifelse2_pipe |
Source code
|
| ifelse_pipe |
Source code
|
| impute_missing_abundance |
Man page
|
| impute_missing_abundance,RangedSummarizedExperiment-method |
Man page
|
| impute_missing_abundance,SummarizedExperiment-method |
Man page
|
| impute_missing_abundance,spec_tbl_df-method |
Man page
|
| impute_missing_abundance,tbl_df-method |
Man page
|
| impute_missing_abundance,tidybulk-method |
Man page
|
| inner_join |
Man page
|
| keep_abundant |
Man page
|
| keep_abundant,RangedSummarizedExperiment-method |
Man page
|
| keep_abundant,SummarizedExperiment-method |
Man page
|
| keep_abundant,spec_tbl_df-method |
Man page
|
| keep_abundant,tbl_df-method |
Man page
|
| keep_abundant,tidybulk-method |
Man page
|
| keep_variable |
Man page
|
| keep_variable,RangedSummarizedExperiment-method |
Man page
|
| keep_variable,SummarizedExperiment-method |
Man page
|
| keep_variable,spec_tbl_df-method |
Man page
|
| keep_variable,tbl_df-method |
Man page
|
| keep_variable,tidybulk-method |
Man page
|
| left_join |
Man page
|
| lmer_to_confidence_intervals_random_effects |
Source code
|
| log10_reverse_trans |
Man page
Source code
|
| logit_trans |
Man page
Source code
|
| mutate |
Man page
|
| mutate.nested_tidybulk |
Source code
|
| mutate.tidybulk |
Source code
|
| my_CIBERSORT |
Source code
|
| my_bibliography |
Source code
|
| my_stop |
Source code
|
| nest |
Man page
|
| parse_formula |
Source code
|
| parse_formula_survival |
Source code
|
| pivot_sample |
Man page
|
| pivot_sample,RangedSummarizedExperiment-method |
Man page
|
| pivot_sample,SummarizedExperiment-method |
Man page
|
| pivot_sample,spec_tbl_df-method |
Man page
|
| pivot_sample,tbl_df-method |
Man page
|
| pivot_sample,tidybulk-method |
Man page
|
| pivot_transcript |
Man page
|
| pivot_transcript,RangedSummarizedExperiment-method |
Man page
|
| pivot_transcript,SummarizedExperiment-method |
Man page
|
| pivot_transcript,spec_tbl_df-method |
Man page
|
| pivot_transcript,tbl_df-method |
Man page
|
| pivot_transcript,tidybulk-method |
Man page
|
| quantile_normalise_abundance |
Man page
|
| quantile_normalise_abundance,RangedSummarizedExperiment-method |
Man page
|
| quantile_normalise_abundance,SummarizedExperiment-method |
Man page
|
| quantile_normalise_abundance,spec_tbl_df-method |
Man page
|
| quantile_normalise_abundance,tbl_df-method |
Man page
|
| quantile_normalise_abundance,tidybulk-method |
Man page
|
| reduce_dimensions |
Man page
|
| reduce_dimensions,RangedSummarizedExperiment-method |
Man page
|
| reduce_dimensions,SummarizedExperiment-method |
Man page
|
| reduce_dimensions,spec_tbl_df-method |
Man page
|
| reduce_dimensions,tbl_df-method |
Man page
|
| reduce_dimensions,tidybulk-method |
Man page
|
| reexports |
Man page
|
| remove_redundancy |
Man page
|
| remove_redundancy,RangedSummarizedExperiment-method |
Man page
|
| remove_redundancy,SummarizedExperiment-method |
Man page
|
| remove_redundancy,spec_tbl_df-method |
Man page
|
| remove_redundancy,tbl_df-method |
Man page
|
| remove_redundancy,tidybulk-method |
Man page
|
| rename |
Man page
|
| rename.tidybulk |
Source code
|
| resolve_complete_confounders_of_non_interest |
Man page
|
| resolve_complete_confounders_of_non_interest,RangedSummarizedExp |
Man page
|
| resolve_complete_confounders_of_non_interest,SummarizedExperimen |
Man page
|
| right_join |
Man page
|
| rotate_dimensions |
Man page
|
| rotate_dimensions,RangedSummarizedExperiment-method |
Man page
|
| rotate_dimensions,SummarizedExperiment-method |
Man page
|
| rotate_dimensions,spec_tbl_df-method |
Man page
|
| rotate_dimensions,tbl_df-method |
Man page
|
| rotate_dimensions,tidybulk-method |
Man page
|
| rowwise |
Man page
|
| rowwise.tidybulk |
Source code
|
| scale_abundance |
Man page
|
| scale_abundance,RangedSummarizedExperiment-method |
Man page
|
| scale_abundance,SummarizedExperiment-method |
Man page
|
| scale_abundance,spec_tbl_df-method |
Man page
|
| scale_abundance,tbl_df-method |
Man page
|
| scale_abundance,tidybulk-method |
Man page
|
| scale_design |
Source code
|
| se |
Man page
|
| se_mini |
Man page
|
| select |
Man page
|
| summarise |
Man page
|
| summary_lmmSeq |
Source code
|
| symbol_to_entrez |
Man page
|
| test_differential_abundance |
Man page
|
| test_differential_abundance,RangedSummarizedExperiment-method |
Man page
|
| test_differential_abundance,SummarizedExperiment-method |
Man page
|
| test_differential_abundance,spec_tbl_df-method |
Man page
|
| test_differential_abundance,tbl_df-method |
Man page
|
| test_differential_abundance,tidybulk-method |
Man page
|
| test_differential_cellularity |
Man page
|
| test_differential_cellularity,RangedSummarizedExperiment-method |
Man page
|
| test_differential_cellularity,SummarizedExperiment-method |
Man page
|
| test_differential_cellularity,spec_tbl_df-method |
Man page
|
| test_differential_cellularity,tbl_df-method |
Man page
|
| test_differential_cellularity,tidybulk-method |
Man page
|
| test_gene_enrichment |
Man page
|
| test_gene_enrichment,RangedSummarizedExperiment-method |
Man page
|
| test_gene_enrichment,SummarizedExperiment-method |
Man page
|
| test_gene_enrichment,spec_tbl_df-method |
Man page
|
| test_gene_enrichment,tbl_df-method |
Man page
|
| test_gene_enrichment,tidybulk-method |
Man page
|
| test_gene_overrepresentation |
Man page
|
| test_gene_overrepresentation,RangedSummarizedExperiment-method |
Man page
|
| test_gene_overrepresentation,SummarizedExperiment-method |
Man page
|
| test_gene_overrepresentation,spec_tbl_df-method |
Man page
|
| test_gene_overrepresentation,tbl_df-method |
Man page
|
| test_gene_overrepresentation,tidybulk-method |
Man page
|
| test_gene_rank |
Man page
|
| test_gene_rank,RangedSummarizedExperiment-method |
Man page
|
| test_gene_rank,SummarizedExperiment-method |
Man page
|
| test_gene_rank,spec_tbl_df-method |
Man page
|
| test_gene_rank,tbl_df-method |
Man page
|
| test_gene_rank,tidybulk-method |
Man page
|
| test_stratification_cellularity |
Man page
|
| test_stratification_cellularity,RangedSummarizedExperiment-metho |
Man page
|
| test_stratification_cellularity,SummarizedExperiment-method |
Man page
|
| test_stratification_cellularity,spec_tbl_df-method |
Man page
|
| test_stratification_cellularity,tbl_df-method |
Man page
|
| test_stratification_cellularity,tidybulk-method |
Man page
|
| tibble |
Man page
|
| tidybulk |
Man page
|
| tidybulk,RangedSummarizedExperiment-method |
Man page
|
| tidybulk,SummarizedExperiment-method |
Man page
|
| tidybulk,spec_tbl_df-method |
Man page
|
| tidybulk,tbl_df-method |
Man page
|
| tidybulk_SAM_BAM |
Man page
|
| tidybulk_SAM_BAM,character,character-method |
Man page
|
| tidybulk_to_tbl |
Source code
|
| tximeta_summarizeToGene_object |
Man page
|
| unnest |
Man page
|
| validate_signature |
Source code
|
| validate_signature_SE |
Source code
|
| validation |
Source code
|
| validation.tidybulk |
Source code
|
| validation_default |
Source code
|
| vignette_manuscript_signature_boxplot |
Man page
|
| vignette_manuscript_signature_tsne |
Man page
|
| vignette_manuscript_signature_tsne2 |
Man page
|
| warning_if_data_is_not_rectangular |
Source code
|
