Add spell check and correct errors.

akoyabio · Mar 3, 2019 · 459230e · 459230e
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Showing 8 changed files with 47 additions and 6 deletions.
diff --git a/DESCRIPTION b/DESCRIPTION
@@ -8,6 +8,7 @@ Authors@R: c(
     person("Akoya Biosciences", role="cph"))
 Copyright: Akoya Biosciences
 Description: Creates diagnostic and summary reports from inForm data.
+Language: en-US
 Depends: R (>= 3.5.0)
 License: Zlib | file LICENSE
 Encoding: UTF-8

diff --git a/NEWS.md b/NEWS.md
@@ -80,7 +80,7 @@ New features:
 **2018-10-22**
 
 New features:
-- Add version number, date stamp and doco link to generated script file #2
+- Add version number, date stamp and documentation link to generated script file #2
 - Add H-Score chart to the generated charts
 - Add Akoya logo to footer in chart report
 

diff --git a/R/merge_cell_seg_files.R b/R/merge_cell_seg_files.R
@@ -4,7 +4,7 @@
 #' creating "Merge" data files. This is similar to the inForm Merge tab but
 #' does not include the ability to review and reject individual fields.
 #' @param base_path Path to a directory containing files to merge. All
-#' elegible files in this directory will be merged.
+#' eligible files in this directory will be merged.
 #' @param update_progress Callback function which is called with progress.
 #' @param recursive If TRUE, will find files in subdirectories of `base_path`.
 #' @export

diff --git a/R/utilities.R b/R/utilities.R
@@ -76,7 +76,7 @@ check_phenotypes = function(params, phenotypes) {
 
 #' Check that a user-specified phenotype definition
 #' can be formed from available phenotypes.
-#' @param pheno Text destription of a phenotype,
+#' @param pheno Text description of a phenotype,
 #' for `phenoptr::parse_phenotypes`.
 #' @param available A character vector of available phenotypes
 #' @return An error message or empty string

diff --git a/README.md b/README.md
@@ -117,7 +117,7 @@ density calculations; selecting a score data file enables H-Score calculation.
 To define the analysis, you select tissue categories, phenotypes, and markers of 
 interest.
 
-To create the finalreports, the analysis app writes and runs an R script.
+To create the final reports, the analysis app writes and runs an R script.
 The script computes the aggregated statistics, writes them to an Excel
 workbook, and creates visualizations of the results in a Word document.
 

diff --git a/inst/WORDLIST b/inst/WORDLIST
@@ -0,0 +1,40 @@
+addin
+Addin
+Addins
+Akoya
+BiocInstaller
+Biosciences
+caleydo
+counterstain
+crosstalk
+DAPI
+decile
+dplyr
+fluor
+fluorophore
+fluors
+FoxP
+http
+inForm
+mis
+nnn
+Opalnnn
+openxlsx
+Phenoptics
+phenoptr
+phenotypes
+Phenotypes
+phenoype
+positivity
+quartile
+readxl
+RStudio
+seg
+singleplex
+Singleplex
+sn
+tif
+unmixing
+Unmixing
+UpSet
+UpSetR
diff --git a/man/merge_cell_seg_files.Rd b/man/merge_cell_seg_files.Rd
diff --git a/man/validate_phenotype_definitions.Rd b/man/validate_phenotype_definitions.Rd