Man pages for jhsiao999/Humanzee
Tools for statistical analysis of genomics data
| bootstrap_cells | Bootstrap cell labels for computing confidence intervals |
| bootstrap_cv_test | Bootstrapping to estimate confidence interval for individual... |
| cell_phase_assign | Assign cell-phase using an ad hoc approach described in... |
| compute_cv | Compute coefficient of variation |
| demo_data | Import data and prepare objects for shiny app |
| fisherCorrTest | Fisher's test for comparing Pearson's correlation... |
| fit_lm | Differential expression analysis using likelihood ratio test... |
| get_qval | Multiple hypothesis testings correction |
| gls.series_multiple_designs | limma gls.series adapted for varying covariates across genes |
| goHeatmapData | Convert Prepare data for visualizing GO terms in a heatmap |
| GOtest | Convert ENSG IDs to ENTREZ IDs adapted from... |
| Humanzee-package | Gilad lab's tools for comparative analysis of gene expression... |
| interact2way | Interaction model for comparing inter-species divergence |
| interact2way_full_buffer | Original version of interaction model for comparing... |
| mixedModel2Fit_multiple_design | Fitting mixed models of one random effect |
| normalize_cv | Adjust coefficients of variation to remove mean dependency |
| permute_cells | Permute cell labels for computing empirical p-values |
| permute_cv_test | Permute cell labels for computing empirical p-values |
| permute_interact | Wapper function for running interaction model on null data... |
| permute_interact_per_gene | Permutation-based test for per gene interaction models |
| plot_density_overlay | Overlay density curves using base package |
| plot_divergence_scatter | Scatter plot of per gene inter-species divergence estimates |
| plotHeatmap | Plot a heatmap of GO terms |
| PropTest | Two-proportion z-test |
| run_igraphScatter | Run Scatter shiny app |
| ruv_mixed_model | Remove unwanted variation using mixed model |
| testDE | Inter-species divergence likelihood ratio test |
| voomWeightsCustomized | Compute voom weights using customized log2 counts |
