Update documentation and travis yaml

KatrionaGoldmann · Feb 19, 2021 · fcc25d0 · fcc25d0
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Showing 23 changed files with 44 additions and 26 deletions.
diff --git a/.travis.yml b/.travis.yml
@@ -3,3 +3,5 @@ r:
   - oldrel
   - release
   - devel
+
+warnings_are_errors: false
diff --git a/R/volcano_trio.R b/R/volcano_trio.R
@@ -366,6 +366,10 @@ volcano_plot <- function(pvalues_df,
 #'       \item h: padj > p_cutoff & fc >= fc_cutoff
 #'       }
 #'   }
+#' @param colour_scheme How to factor the colour scheme. Colour by "none" for 
+#' significance group (by p and fold change cut-off), "upregulated" colour-
+#' coded according to the upregulated groups, or "polar" for the significance 
+#' group.  
 #' @param fc_line Logical whether to add vertical dashed line at fc_cutoff
 #' (default = TRUE).
 #' @param p_line Logical whether to add horizontal dashed line at p_cutoff

diff --git a/docs/articles/Extended_Vignette.html b/docs/articles/Extended_Vignette.html
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-15-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-15-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-16-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-16-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-17-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-17-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-18-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-18-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-22-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-22-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-36-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-36-1.png
diff --git a/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-40-1.png b/docs/articles/Extended_Vignette_files/figure-html/unnamed-chunk-40-1.png
diff --git a/docs/articles/Vignette.html b/docs/articles/Vignette.html
diff --git a/docs/articles/Vignette_files/figure-html/unnamed-chunk-13-1.png b/docs/articles/Vignette_files/figure-html/unnamed-chunk-13-1.png
diff --git a/docs/articles/Vignette_files/figure-html/unnamed-chunk-15-1.png b/docs/articles/Vignette_files/figure-html/unnamed-chunk-15-1.png
diff --git a/docs/articles/pvalues_generator_files/figure-html/unnamed-chunk-18-1.png b/docs/articles/pvalues_generator_files/figure-html/unnamed-chunk-18-1.png
diff --git a/docs/articles/pvalues_generator_files/figure-html/unnamed-chunk-20-1.png b/docs/articles/pvalues_generator_files/figure-html/unnamed-chunk-20-1.png
diff --git a/docs/articles/shiny_builder.html b/docs/articles/shiny_builder.html
diff --git a/docs/articles/shiny_builder_files/figure-html/unnamed-chunk-7-1.png b/docs/articles/shiny_builder_files/figure-html/unnamed-chunk-7-1.png
diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml
@@ -6,5 +6,5 @@ articles:
   Vignette: Vignette.html
   pvalues_generator: pvalues_generator.html
   shiny_builder: shiny_builder.html
-last_built: 2021-02-04T20:43Z
+last_built: 2021-02-19T18:13Z
 
diff --git a/docs/reference/Rplot002.png b/docs/reference/Rplot002.png
diff --git a/docs/reference/volcano_plot-1.png b/docs/reference/volcano_plot-1.png
diff --git a/docs/reference/volcano_plot.html b/docs/reference/volcano_plot.html
diff --git a/docs/reference/volcano_trio.html b/docs/reference/volcano_trio.html
diff --git a/man/volcano_trio.Rd b/man/volcano_trio.Rd
-Original file line number
+Diff line change
@@ Expand Up / @@ -3,3 +3,5 @@ r: @@
       - oldrel
       - release
       - devel
+    warnings_are_errors: false