Man pages for pachterlab/museumst
Museum of Spatial Transcriptomics
| cache_timestamp | Get the timestamp of the internal version of the metadata |
| cat_heatmap | Plot heatmap to show relationship between two categorical... |
| era_freqpoly | Prequel vs current binned over time |
| geocode_address | Geocode addresses and institutions with Google's API |
| geocode_city | Get longitude and latitude of cities |
| geocode_inst_city | Geocode institutions and cities |
| get_pubs_df | Get data frame with one publication per row |
| hist_bool | Plot histogram for each value of a logical variable |
| hist_bool_line | Plot outlines of histogram for a logical variable |
| inst_words | List of institution words |
| lcm_abstracts | LCM abstracts from PubMed and bioRxiv search |
| lcm_city_gc | City geocodes of LCM literature |
| lcm_dfm2 | Document term matrix of LCM abstracts |
| lcm_tokens | quanteda tokens for LCM abstracts |
| make_labs | Construct plotmath labels for time lines |
| my_searchK | Find the appropriate number of topics for stm |
| plot_ec | Plot exclusivity vs. semantic coherence for different K's |
| plot_facets_color | Color facet strips by a variable |
| plot_k_result | Plot the metrics for each K tried |
| plot_timeline | Plot time line with images and descriptions of each event |
| plot_topic_prop | Plot expected topic proportion in the corpus |
| plot_topic_words | Plot probability of each word in each topic |
| plot_wordcloud | Plot word cloud for a column |
| pubs_on_map | Plot number of publications at each location |
| pubs_per_capita | Plot per capita data as choropleth or bar plot |
| pubs_per_cat | Number of publications per category |
| pubs_per_year | Number of publications per year |
| read_major_events | Read the major events sheet |
| read_metadata | Read the metadata from Google Sheets |
| sheet_fill | Color palette for sheets |
| species_cols | Color palette for species |
| stm_res | stm model of LCM abstracts |
| test_year_bool | Test whether something is associated with time |
| unnest_cat | Transform the sheet to have one species, method, or language... |
| word_prop_scatter | Compare word frequencies between current era and prequel |
