Man pages for vjcitn/tnt4dn8
TnT applications with GWAS in dn8 format
| avail_syms_gtex | symbols available in the GTEx excerpt |
| basic2 | simple demo for a table like those produced by Ahmed |
| dn8_hub | provisional constructor of a hub to collect all resources and... |
| dn8_hub_close | close hub |
| filter_dn8like | filter a table with dn8like columns |
| filter_sym | filter a symbol from a table meeting dn8 naming conditions,... |
| genes_ensv75 | a data frame with gene addresses etc. for hg19 coordinates |
| genes_ensv79 | a data frame with gene addresses etc. for hg38 coordinates |
| genetrack_hg19 | TnT genetrack from Ensembl v75 |
| gtex_b38_lung_chr20_exc | small dn8-formatted GTEx excerpt, chr20 |
| gtex_pairs_to_data.frame | import signif_variant_gene_pairs from GTEx to data.frame,... |
| hg38ToHg19 | a chain lifting from hg38 to hg19 |
| limgwcat_b38 | small dn8-similar GWAS catalog excerpt, chr20 |
| make_ui | demo ui |
| print.dn8_hub | view hub |
| runBasic | run igvR to plot SNP p-values over gene models |
| server | demo server |
| simpleviz | simple plotter |
| sym2region | produce a list of chrom, start, end, given gene symbol |
| tab2grngs | simple converter |
| tables | list the 'tables' available in a hub (really the database... |
| tbl.dn8_hub | select a tbl from a hub |
| tntapp | app code |
| tntplot | TnT approach |
| tntplot2 | detailed plot |
| tntplot3 | detailed plot with 2 data tracks |
| vjcdemo | test single GWAS track |
