Man pages for stephenslab/fastTopics
Fast Algorithms for Fitting Topic Models and Non-Negative Matrix Factorizations to Count Data
| annotation_heatmap | Annotation Heatmap |
| compare_fits | Summarize and Compare Model Fits |
| de_analysis | Differential Expression Analysis using a Topic Model |
| embedding_plots | PCA, t-SNE and UMAP Plots |
| embeddings_from_topics | Low-dimensional Embeddings from Poisson NMF or Multinomial... |
| fit_multinom_model | Fit Simple Multinomial Model |
| fit_poisson_nmf | Fit Non-negative Matrix Factorization to Count Data |
| fit_topic_model | Simple Interface for Fitting a Multinomial Topic Model |
| likelihood | NMF and Topic Model Likelihoods and Deviances |
| loadings_plot | Loadings Plot |
| merge_topics | Combine Topics in Multinomial Topic Model |
| multinom2poisson | Recover Poisson NMF Fit from Multinomial Topic Model Fit |
| newsgroups | Topic modeling results from the "20 Newsgroups" data set. |
| pbmc_facs | Mixture of 10 FACS-purified PBMC Single-Cell RNA-seq data |
| plot_loglik_vs_rank | Plot Log-Likelihood Versus Rank |
| plot_progress | Plot Progress of Model Fitting Over Time |
| poisson2multinom | Recover Multinomial Topic Model Fit from Poisson NMF fit |
| predict | Predict Methods for Poisson NMF and Multinomial Topic Model |
| run_homer | Perform HOMER Motif Enrichment Analysis using DE Genomic... |
| select_loadings | Extract or Re-order Data Rows in Poisson NMF or Multinomial... |
| simulate_count_data | Simulate Count Data from Poisson NMF Model |
| simulate_gene_data | Simulate Gene Expression Data from Poisson NMF or Multinomial... |
| simulate_toy_gene_data | Simulate Toy Gene Expression Data |
| structure_plot | Structure Plot |
| summary.poisson_nmf_fit | Summarize Poisson NMF or Multinomial Topic Model Fit |
| volcano_plot | Volcano Plots for Visualizing Results of Differential... |
