Man pages for saezlab/SLAPenrich
Sample-population Level Analysis of Pathway enrichments
| LUAD_CaseStudy | Genomic event matrix derived from variants found in a cohort... |
| LUAD_CaseStudy_clinicalInfos | Clinical informations for a cohort of 188 lung adenocarcinoma... |
| LUAD_CaseStudy_ugs | Genomic event matrix derived from variants found in a cohort... |
| SLAPE.all_genes_exonic_block_lenghts_ensemble | Genome-wide total exonic block lenghts |
| SLAPE.all_genes_exonic_lengths_ensemble | Genome-wide exone attributes and genomic coordinates |
| SLAPE.analyse | Performing Sample population Level Analysis of Pathway... |
| SLAPE.check_and_fix_gs_Dataset | Check and fix gene symbol names in a genomic event dataset |
| SLAPE.check_and_fix_path_collection | Check and fix gene symbol names in a collection of pathway... |
| SLAPE.compute_gene_exon_content_block_lengths | Computing genome-wide total exonic block lengths |
| SLAPE.core_components | Identification of core-component genes shared by multiple... |
| SLAPE.diff_SLAPE_analysis | Differential SLAPenrichment analysis |
| SLAPE.gene_ecbl_length | Computing the total exonic block length of a given gene |
| SLAPE.heuristic_mut_ex_sorting | Run-minimizing permutation of rows and colums of a binary... |
| SLAPE.hgnc.table | HUGO gene symbols and their previous synonyms (up to February... |
| SLAPE.MSigDB_KEGG_hugoUpdated | Collection of KEGG pahtway gene-sets from the Molecular... |
| SLAPE.PATHCOM_HUMAN | Collection of pahtway gene-sets from Pathway-Commons |
| SLAPE.PATHCOM_HUMAN_nr_i_hu_2014 | Collection of pahtway gene-sets from Pathway-Commons (v2014)... |
| SLAPE.PATHCOM_HUMAN_nr_i_hu_2016 | Collection of pahtway gene-sets from Pathway-Commons (v2016)... |
| SLAPE.pathvis | Generatig a heatmap of the alteration matrix of a... |
| SLAPE.readDataset | Reading genomic evant dataset |
| SLAPE.serialPathVis | Systematic generation of heatmaps of the alteration matrices... |
| SLAPE.update_exon_attributes | Creating an updated gene exon attributes data object |
| SLAPE.update_HGNC_Table | Updating the R data object containing a HUGO approved... |
| SLAPE.write.table | Writing SLAPenrich results in a csv file |
