API for pachterlab/sleuth
Tools for investigating RNA-Seq
| Global functions | |
|---|---|
| $<-.sleuth | Man page |
| .read_bootstrap_hdf5 | Source code |
| add_test | Source code |
| aggregate_bootstrap | Source code |
| basic_filter | Man page Source code |
| bias_table | Source code |
| bias_table.kallisto | Source code |
| bias_table.sleuth | Source code |
| bootstrap2mat | Source code |
| bs_sigma_summary | Source code |
| check_quant_mode | Source code |
| compute_likelihood | Source code |
| counts_to_fpkm | Source code |
| counts_to_tpm | Source code |
| covar_beta | Source code |
| dcast_bootstrap | Source code |
| dcast_bootstrap.kallisto | Source code |
| dcast_bootstrap.sleuth | Source code |
| design_matrix | Man page Source code |
| enclosed_brush | Source code |
| excluded_ids | Man page Source code |
| extract_model | Man page |
| filter_df_all_groups | Source code |
| filter_df_by_groups | Source code |
| gene_from_gene | Man page |
| gene_summary | Source code |
| get_bootstrap_summary | Man page Source code |
| get_bootstraps | Man page Source code |
| get_bootstraps.kallisto | Source code |
| get_bootstraps.sleuth | Source code |
| get_col | Man page |
| get_kallisto_path | Source code |
| get_likelihood | Source code |
| get_quantile | Source code |
| get_test | Source code |
| h5check | Source code |
| head.kallisto | Source code |
| is_kallisto_subset | Man page Source code |
| is_kallisto_subset.kallisto | Source code |
| is_kallisto_subset.sleuth | Source code |
| kallisto_table | Man page |
| kv_vec_to_df | Source code |
| likelihood_exists | Source code |
| list_all_tests | Source code |
| list_tests | Source code |
| log_transform | Man page Source code |
| me_heteroscedastic_by_row | Source code |
| me_model | Source code |
| me_model_by_row | Source code |
| me_white_model | Source code |
| me_white_var | Source code |
| melt_bootstrap | Source code |
| model_exists | Source code |
| models | Man page Source code |
| models.sleuth | Source code |
| models.sleuth_model | Source code |
| norm_factors | Man page |
| normalize_bootstrap | Source code |
| plot_bootstrap | Man page Source code |
| plot_fld | Source code |
| plot_fld.kallisto | Man page Source code |
| plot_fld.sleuth | Man page Source code |
| plot_group_density | Man page Source code |
| plot_loadings | Man page Source code |
| plot_ma | Man page Source code |
| plot_mean_var | Man page Source code |
| plot_pc_variance | Man page Source code |
| plot_pca | Man page Source code |
| plot_qq | Man page Source code |
| plot_sample_density | Man page Source code |
| plot_sample_heatmap | Man page Source code |
| plot_scatter | Man page Source code |
| plot_transcript_heatmap | Man page Source code |
| plot_vars | Man page Source code |
| plot_volcano | Man page Source code |
| print.kallisto | Source code |
| print.sleuth | Source code |
| print.sleuth_model | Man page Source code |
| process_bootstrap | Source code |
| propagate_transcript_filter | Source code |
| read_bootstrap_mat | Source code |
| read_kallisto | Man page Source code |
| read_kallisto_h5 | Man page Source code |
| read_kallisto_tsv | Man page Source code |
| reads_per_base_transform | Source code |
| sample_bootstrap | Source code |
| sleuth_deploy | Man page Source code |
| sleuth_fit | Man page Source code |
| sleuth_gene_table | Man page |
| sleuth_live | Man page Source code |
| sleuth_live_settings | Man page Source code |
| sleuth_load | Man page |
| sleuth_lrt | Man page Source code |
| sleuth_prep | Man page Source code |
| sleuth_results | Man page Source code |
| sleuth_save | Man page |
| sleuth_to_matrix | Man page Source code |
| sleuth_wt | Man page Source code |
| subset_kallisto | Man page Source code |
| subset_kallisto.kallisto | Source code |
| subset_kallisto.sleuth | Source code |
| summarize_bootstrap | Source code |
| test_exists | Source code |
| tests | Source code |
| tests.sleuth | Source code |
| tpm_to_alpha | Source code |
| transcripts_from_gene | Man page |
| transform_fun_counts<- | Man page |
| transform_fun_tpm<- | Man page |
| transform_status | Man page Source code |
| transform_status.sleuth | Source code |
| transform_status.sleuth_model | Source code |
| write_kallisto_hdf5 | Man page |
