Man pages for Sabor117/PathWAS
Creates predictive models of biological pathway functionality
| flip.data.frame | Check and flip the alleles of a data frame |
| genepath_ListR | Create pathway gene-lists for all GTEx tissues |
| getpaths_frmEnds | Get (KEGG) biological pathways from end point |
| get_tissuegenes | Obtain a tissue-specific list of genes for a pathway |
| glmnet_enet_mr | Run elastic net-based mendelian randomisation from input MR... |
| heading | Print as heading |
| kegg_geneglob | Obtain all genes from a KEGG pathway |
| ld_clump_api | Perform clumping on the chosen variants using through API |
| lmp | Extract P-value from regression model |
| MRenet-class | MR elastic net class |
| MR_genecheckR | Predict MR pathway models in pathway PRS, excluding one... |
| omics_MungeR | Merging clumped SNPs with the SNPs from an omics end-point |
| pathWAS_enet | Conduct Elasticnet Mendelian randomisation of clumped SNPs... |
| pathwas_ld_clump | Perform LD clumping on SNP data |
| pathwas_ld_clump_local | Wrapper for clump function using local plink binary and ld... |
| pathWAS_MR | Conduct Mendelian randomisation of clumped SNPs from pathway... |
| pathWAS_MRInput | Create MR Input object for MVMR |
| pathWAS_predictR | Predict MR pathway models in pathway PRS |
| pathWAS_snpCheck | Removes invalid SNPs from MR input |
| prs_mergeR | Creates model for pathway regressed against end-point omics |
| qtl_clumpR | Clump QTL SNPs based on gene |
| smple_paths | Get all simple paths from KEGG pathway |
| transcript_check | Check whether a gene is transcribed via the pathway (I.e. via... |
