added a couple of exports

ParkerICI · Feb 2, 2021 · 2dada43 · 2dada43
1 parent 3180392
commit 2dada43
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Showing 13 changed files with 83 additions and 31 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -1,7 +1,7 @@
 Package: vite
 Type: Package
 Title: Analyzing single-cell data using graphs
-Version: 0.4.7
+Version: 0.4.8
 Authors@R: "Pier Federico Gherardini <pfgherardini@parkerici.org> [aut, cre]"
 Description: This is a package for visualization and analysis of high-dimensional
     single-cell data using graphs
@@ -13,4 +13,4 @@ LinkingTo: Rcpp
 License: GPL v3
 Encoding: UTF-8
 LazyData: true
-RoxygenNote: 6.1.0
+RoxygenNote: 7.1.1
diff --git a/NAMESPACE b/NAMESPACE
@@ -2,6 +2,8 @@
 
 export(build_graph)
 export(complete_forceatlas2)
+export(cosine_similarity_from_matrix)
+export(cosine_similarity_matrix)
 export(filter_matrix_by_rank)
 export(get_scaffold_map)
 export(get_unsupervised_graph)

diff --git a/R/unsupervised.R b/R/unsupervised.R
@@ -6,6 +6,7 @@
 #' @return Returns a vector of length \code{N} containing the cosine similarity between
 #'   the vector \code{x} and all the rows of \code{m}
 #'
+#' @export
 cosine_similarity_from_matrix <- function(x, m) {
     x <- x / as.vector(sqrt(crossprod(x)))
     return(as.vector((m %*% x) / sqrt(rowSums(m^2))))
@@ -21,6 +22,8 @@ cosine_similarity_from_matrix <- function(x, m) {
 #'
 #' @return Returns an \code{N x N} matrix with the cosine similarity between the corresponding rows in \code{m}
 #'
+#'
+#' @export
 cosine_similarity_matrix <- function(m){
     ret <- m %*% t(m) / (sqrt(rowSums(m^2) %*% t(rowSums(m^2))))
     return(ret)

diff --git a/man/add_vertices_to_landmarks_graph.Rd b/man/add_vertices_to_landmarks_graph.Rd
diff --git a/man/complete_forceatlas2.Rd b/man/complete_forceatlas2.Rd
diff --git a/man/get_distances_from_landmarks.Rd b/man/get_distances_from_landmarks.Rd
diff --git a/man/get_scaffold_map.Rd b/man/get_scaffold_map.Rd
diff --git a/man/get_unsupervised_graph_from_files.Rd b/man/get_unsupervised_graph_from_files.Rd
diff --git a/man/layout_forceatlas2.Rd b/man/layout_forceatlas2.Rd
diff --git a/man/load_landmarks_from_dir.Rd b/man/load_landmarks_from_dir.Rd
diff --git a/man/run_scaffold_analysis.Rd b/man/run_scaffold_analysis.Rd
diff --git a/man/write_clusters_data.Rd b/man/write_clusters_data.Rd
diff --git a/man/write_scaffold_output.Rd b/man/write_scaffold_output.Rd