Man pages for karltayeb/gseasusie
Gene Set Enrichment Analysis with Multiple Regression
| concat_genesets | take a list of genesets and concatenate them |
| construct_geneset_matrix | Construct gene set matrix out of gene set table |
| convert_alias_to_entrez | Convert list of gene aliases to entrez ids if 1:many mapping... |
| convertGeneSet | convert a geneSet tibble into a list of gene sets |
| enrichment_volcano | make a volcato plot res is a tibble with columns oddsRatio,... |
| fit_gsea_susie_webgestalt | Fit logistic SuSiE using gene sets available from WebGestaltR |
| fit_tccm_point_normal | Fit Point-Normal |
| fit_tccm_point_normal_susie | Fit Point Normal SuSiE |
| generate_f_pointmass | density families loglik is a function that takes data and a... |
| generate_h_susie | params is a logistic.susie results object |
| geneSet2X | convert geneSet tibble to matrix |
| get_credible_set_summary | report top 50 elements in cs |
| get_gene_set_summary | map each gene set to the component with top alpha report pip |
| label_sig_enrichments | apply FDR correction to marginal pvalues and label... |
| load_all_go | convenient function to load all GO terms (across ontologies... |
| load_all_msigdb | convenient function to load MSigDb C1-6 |
| load_gene_sets | load gene sets from various sources with uniform format |
| load_msigdb_geneset_x | load MSigDB gene sets from 'msigdbr' package in standardized... |
| load_pathways_genesets | wrapper for loading geneSets from peters 'pathways' package |
| load.webGestalt.geneSet | wrapper for webGestatlR geneSet loading |
| load_webgestalt_geneset_x | formate WebGestaltR geneSets to standardized format |
| make_cs_tbl | Make table summarizing credible sets |
| make_reactable | Render cs table with reactable |
| make_rwg_column_style | Create Red - Green column style |
| make_sensible_colDef | Sensible default column defintions |
| pipe | Pipe operator |
| prepare_data_webgestalt | make X and y for logistic SuSiE |
| prep_binary_data | Pepare gene set matrix and binary gene list |
| static_table | Report credible set based summary of SuSiE |
| X2geneSet | convert gene set matrix to geneSet tibble |
