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TiagoOlivoto · Nov 9, 2021 · f018f4e · f018f4e
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -29,6 +29,6 @@ biocViews:
 Encoding: UTF-8
 Language: en-US
 Roxygen: list(markdown = TRUE)
-RoxygenNote: 7.1.1
+RoxygenNote: 7.1.2
 Imports: 
     lattice
diff --git a/NEWS.md b/NEWS.md
@@ -1,13 +1,12 @@
 # pliman 1.0.0
 ## New functions
 * `analyze_objects()` is now used as the main function to compute the number and shape of objects.
-* `measure_disease()` is now used as the main function to perform phytopatometry studies. The function can compute symptomatic area, as well as number and shape of lesions.
+* `measure_disease()` is now used as the main function to perform phytopatometry studies. The function can compute symptomatic area, as well as the number and shape of lesions.
 * `image_segment_iter()` is used to performs iterative image segmentation.
-* `conv_hull()`, `poly_area()`, and `plot_contour()` as utilities for analyzing polygons.
+* `conv_hull()`, `poly_area()`, `poly_mass()`, `poly_spline()`, `plot_contour()`, and `plot_ellipse()` as utilities for analyzing polygons.
 * `dpi()` to compute the resolution (dots per inch) of an image.
 * `tune_tolerance()` for tunning the `tolerance` parameter.
 
-
 ## Deprecated functions.
 * `objects_rgb()` will be depracated in the future. Now, to compute an index for each object use the `object_index` argument in  `analyze_objects()`, for example, `analyze_objects(object_index = "B")`.
 * `leaf_area()` will be depracated in the future. Now, combine `analyze_objects()` with `get_measures()` to obtain the area and shape of objects (leaves).

diff --git a/R/analyze_objects.R b/R/analyze_objects.R
@@ -186,7 +186,7 @@
 #'
 #' Lee, Y., & Lim, W. (2017). Shoelace Formula: Connecting the Area of a Polygon
 #' and the Vector Cross Product. The Mathematics Teacher, 110(8), 631–636.
-#' \doi{10.5951/MATHTEACHER.110.8.0631}
+#' \doi{10.5951/mathteacher.110.8.0631}
 #'
 #' @export
 #' @name analyze_objects

diff --git a/R/utils_polygon.R b/R/utils_polygon.R
@@ -54,7 +54,7 @@
 #' @export
 #' @references Lee, Y., & Lim, W. (2017). Shoelace Formula: Connecting the Area
 #'   of a Polygon and the Vector Cross Product. The Mathematics Teacher, 110(8),
-#'   631–636. doi:10.5951/MATHTEACHER.110.8.0631
+#'   631–636. \doi{10.5951/mathteacher.110.8.0631}
 #' @examples
 #' \donttest{
 #' library(pliman)
@@ -74,13 +74,11 @@
 #'
 #'# The convex hull will be the vertices of the square
 #' (conv_square <- conv_hull(df))
+#' plot_contour(conv_square,
+#'              col = "blue",
+#'              lwd = 6)
 #' poly_area(conv_square)
 #'
-#' with(conv_square,
-#'      lines(x, y,
-#'            col  = "blue",
-#'            lwd = 10))
-#'
 #'############# Example with a polygon#############
 #' x <- c(0, 1,   2, 3,  5, 2, -1, 0, 0)
 #' y <- c(5, 6.5, 7, 3,  1, 1,  0, 2, 5)

diff --git a/README.Rmd b/README.Rmd
@@ -113,8 +113,3 @@ sev$severity
 Please note that the pliman project is released with a [Contributor Code of Conduct](https://tiagoolivoto.github.io/pliman/CODE_OF_CONDUCT.html). By contributing to this project, you agree to abide by its terms.
 
 
-<!-- inicio academic icons -->
-<link rel="stylesheet" href="https://cdn.jsdelivr.net/gh/jpswalsh/academicons@1/css/academicons.min.css">
-<!-- final academic icons -->
-<!-- inicio font awesome -->
-<script src="https://kit.fontawesome.com/1f72d6921a.js" crossorigin="anonymous"></script>
diff --git a/_pkgdown.yml b/_pkgdown.yml
@@ -5,6 +5,7 @@ home:
   description: Tools for Plant Image Analysis
 
 template:
+  assets: fans.html
   params:
     bootswatch: spacelab
     ganalytics: G-VWN5YL53DP
@@ -38,7 +39,11 @@ navbar:
     - text: "Functions"
       href: reference/index.html
     - text: News
-      href: news/index.html
+      menu:
+      - text: Package news
+        href: news/index.html
+      - text: Blog posts
+        href: https://olivoto.netlify.app/
     - text: More
       menu:
       - text: Code of Conduct
@@ -52,14 +57,13 @@ navbar:
       - text: Licence
         href: LICENSE.html
   right:
-    - text: "RG"
+    - icon: "fab fa-researchgate fa-2x"
       href: https://www.researchgate.net/profile/Tiago_Olivoto2
-      icon: ai ai-researchgate
-    - icon: "fab-github"
+    - icon: "fa-github fa-2x"
       href: https://github.com/TiagoOlivoto
-    - icon: "fab fa-twitter"
+    - icon: "fab fa-twitter fa-2x"
       href: https://twitter.com/tolivoto
-    - icon: "fab fa-mendeley"
+    - icon: "fab fa-mendeley fa-2x"
       href: https://www.mendeley.com/profiles/tiago-olivoto/
 
 
@@ -127,3 +131,5 @@ reference:
       - measure_disease
       - symptomatic_area
       - sad
+
+
diff --git a/docs/404.html b/docs/404.html
diff --git a/docs/CODE_OF_CONDUCT.html b/docs/CODE_OF_CONDUCT.html
diff --git a/docs/CONTRIBUTING.html b/docs/CONTRIBUTING.html
diff --git a/docs/LICENSE.html b/docs/LICENSE.html
diff --git a/docs/SUPPORT.html b/docs/SUPPORT.html