diff --git a/docs/404.html b/docs/404.html index 69af5be..fcc0a78 100644 --- a/docs/404.html +++ b/docs/404.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/LICENSE-text.html b/docs/LICENSE-text.html index 821f484..0ea6947 100644 --- a/docs/LICENSE-text.html +++ b/docs/LICENSE-text.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/articles/analysis.html b/docs/articles/analysis.html index 0570ab8..77bb0d2 100644 --- a/docs/articles/analysis.html +++ b/docs/articles/analysis.html @@ -31,7 +31,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -99,7 +99,7 @@

Analyzing inForm data

Kent Johnson

-

2021-06-10

+

2021-06-14

Source: vignettes/analysis.Rmd diff --git a/docs/articles/consolidation.html b/docs/articles/consolidation.html index 346159e..7e4a31f 100644 --- a/docs/articles/consolidation.html +++ b/docs/articles/consolidation.html @@ -31,7 +31,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -99,7 +99,7 @@

Consolidating inForm data

Kent Johnson

-

2021-06-10

+

2021-06-14

Source: vignettes/consolidation.Rmd diff --git a/docs/articles/index.html b/docs/articles/index.html index 9f7bb99..b781579 100644 --- a/docs/articles/index.html +++ b/docs/articles/index.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/articles/spatial_map_viewer.html b/docs/articles/spatial_map_viewer.html index 17b300e..26d7c53 100644 --- a/docs/articles/spatial_map_viewer.html +++ b/docs/articles/spatial_map_viewer.html @@ -31,7 +31,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -99,7 +99,7 @@

Viewing nearest neighbors

Kent Johnson

-

2021-06-10

+

2021-06-14

Source: vignettes/spatial_map_viewer.Rmd diff --git a/docs/articles/unmixing_quality_report.html b/docs/articles/unmixing_quality_report.html index 4e9dcb4..c28a9d5 100644 --- a/docs/articles/unmixing_quality_report.html +++ b/docs/articles/unmixing_quality_report.html @@ -31,7 +31,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -99,7 +99,7 @@

Unmixing quality report

Kent Johnson

-

2021-06-10

+

2021-06-14

Source: vignettes/unmixing_quality_report.Rmd diff --git a/docs/authors.html b/docs/authors.html index 59f0a0e..10e9411 100644 --- a/docs/authors.html +++ b/docs/authors.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/index.html b/docs/index.html index a249b4e..4f2b7ea 100644 --- a/docs/index.html +++ b/docs/index.html @@ -31,7 +31,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/news/index.html b/docs/news/index.html index ef96425..b4bec6d 100644 --- a/docs/news/index.html +++ b/docs/news/index.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -140,6 +140,15 @@

Changelog

Source: NEWS.md +
+

+phenoptrReports 0.2.13

+

2021-06-14

+

Analysis addin:

+ +

phenoptrReports 0.2.12

diff --git a/docs/pkgdown.yml b/docs/pkgdown.yml index 08886c4..0601555 100644 --- a/docs/pkgdown.yml +++ b/docs/pkgdown.yml @@ -6,7 +6,7 @@ articles: consolidation: consolidation.html spatial_map_viewer: spatial_map_viewer.html unmixing_quality_report: unmixing_quality_report.html -last_built: 2021-06-10T14:09Z +last_built: 2021-06-14T17:55Z urls: reference: http://akoyabio.github.io/phenoptrReports/reference article: http://akoyabio.github.io/phenoptrReports/articles diff --git a/docs/reference/addin_10_merge.html b/docs/reference/addin_10_merge.html index 79ffa6c..dfc775b 100644 --- a/docs/reference/addin_10_merge.html +++ b/docs/reference/addin_10_merge.html @@ -77,7 +77,7 @@ phenoptrReports - 0.2.12 + 0.2.13
diff --git a/docs/reference/addin_20_consolidate.html b/docs/reference/addin_20_consolidate.html index 93ba7a4..e8162d6 100644 --- a/docs/reference/addin_20_consolidate.html +++ b/docs/reference/addin_20_consolidate.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/addin_30_analysis_app.html b/docs/reference/addin_30_analysis_app.html index 5acd9fb..82d300f 100644 --- a/docs/reference/addin_30_analysis_app.html +++ b/docs/reference/addin_30_analysis_app.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/addin_35_spatial_map_viewer.html b/docs/reference/addin_35_spatial_map_viewer.html index 5d46a15..df8751f 100644 --- a/docs/reference/addin_35_spatial_map_viewer.html +++ b/docs/reference/addin_35_spatial_map_viewer.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/addin_40_unmixing_quality.html b/docs/reference/addin_40_unmixing_quality.html index 616257c..c6e65c9 100644 --- a/docs/reference/addin_40_unmixing_quality.html +++ b/docs/reference/addin_40_unmixing_quality.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/addin_50_component_levels.html b/docs/reference/addin_50_component_levels.html index a793f2b..1e7888d 100644 --- a/docs/reference/addin_50_component_levels.html +++ b/docs/reference/addin_50_component_levels.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/choose_directory.html b/docs/reference/choose_directory.html index 2e59b7a..b72afcb 100644 --- a/docs/reference/choose_directory.html +++ b/docs/reference/choose_directory.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/choose_files.html b/docs/reference/choose_files.html index aa9bedc..f6a3e47 100644 --- a/docs/reference/choose_files.html +++ b/docs/reference/choose_files.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/component_levels_report.html b/docs/reference/component_levels_report.html index 2798305..4ed3307 100644 --- a/docs/reference/component_levels_report.html +++ b/docs/reference/component_levels_report.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_density_from_cell_summary.html b/docs/reference/compute_density_from_cell_summary.html index 0576df2..7a30f88 100644 --- a/docs/reference/compute_density_from_cell_summary.html +++ b/docs/reference/compute_density_from_cell_summary.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_density_from_table.html b/docs/reference/compute_density_from_table.html index b81513c..d08f948 100644 --- a/docs/reference/compute_density_from_table.html +++ b/docs/reference/compute_density_from_table.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_h_score.html b/docs/reference/compute_h_score.html index 5a5f220..1acebf9 100644 --- a/docs/reference/compute_h_score.html +++ b/docs/reference/compute_h_score.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_h_score_from_score_data.html b/docs/reference/compute_h_score_from_score_data.html index 6c42518..319b558 100644 --- a/docs/reference/compute_h_score_from_score_data.html +++ b/docs/reference/compute_h_score_from_score_data.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_mean_expression.html b/docs/reference/compute_mean_expression.html index 8375505..0b0c2a2 100644 --- a/docs/reference/compute_mean_expression.html +++ b/docs/reference/compute_mean_expression.html @@ -74,7 +74,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_mean_expression_many.html b/docs/reference/compute_mean_expression_many.html index 186245b..7df97fb 100644 --- a/docs/reference/compute_mean_expression_many.html +++ b/docs/reference/compute_mean_expression_many.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_positivity.html b/docs/reference/compute_positivity.html index 2d0bb0b..b3926d7 100644 --- a/docs/reference/compute_positivity.html +++ b/docs/reference/compute_positivity.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/compute_positivity_many.html b/docs/reference/compute_positivity_many.html index 72c6ef2..98fa128 100644 --- a/docs/reference/compute_positivity_many.html +++ b/docs/reference/compute_positivity_many.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/consolidate_and_summarize_cell_seg_data.html b/docs/reference/consolidate_and_summarize_cell_seg_data.html index c47c631..2d02536 100644 --- a/docs/reference/consolidate_and_summarize_cell_seg_data.html +++ b/docs/reference/consolidate_and_summarize_cell_seg_data.html @@ -76,7 +76,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/count_phenotypes.html b/docs/reference/count_phenotypes.html index a52244d..693f907 100644 --- a/docs/reference/count_phenotypes.html +++ b/docs/reference/count_phenotypes.html @@ -74,7 +74,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/count_within_summary.html b/docs/reference/count_within_summary.html index e7bb971..df606be 100644 --- a/docs/reference/count_within_summary.html +++ b/docs/reference/count_within_summary.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/counts_to_percents.html b/docs/reference/counts_to_percents.html index 70fa8b1..8b7b35f 100644 --- a/docs/reference/counts_to_percents.html +++ b/docs/reference/counts_to_percents.html @@ -74,7 +74,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/discrete_colors.html b/docs/reference/discrete_colors.html index e01e8ac..84bd8cb 100644 --- a/docs/reference/discrete_colors.html +++ b/docs/reference/discrete_colors.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/index.html b/docs/reference/index.html index 69fddb5..25d8cc1 100644 --- a/docs/reference/index.html +++ b/docs/reference/index.html @@ -71,7 +71,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/merge_cell_seg_files.html b/docs/reference/merge_cell_seg_files.html index 3c65537..5cf3e3a 100644 --- a/docs/reference/merge_cell_seg_files.html +++ b/docs/reference/merge_cell_seg_files.html @@ -74,7 +74,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/nearest_neighbor_map.html b/docs/reference/nearest_neighbor_map.html index bfbfc2a..aa0f609 100644 --- a/docs/reference/nearest_neighbor_map.html +++ b/docs/reference/nearest_neighbor_map.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/nearest_neighbor_summary.html b/docs/reference/nearest_neighbor_summary.html index 4f071e4..bfdbbcb 100644 --- a/docs/reference/nearest_neighbor_summary.html +++ b/docs/reference/nearest_neighbor_summary.html @@ -79,7 +79,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/order_by_slide_and_tissue_category.html b/docs/reference/order_by_slide_and_tissue_category.html index 280eec0..8a51502 100644 --- a/docs/reference/order_by_slide_and_tissue_category.html +++ b/docs/reference/order_by_slide_and_tissue_category.html @@ -78,7 +78,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/spatial_map_viewer.html b/docs/reference/spatial_map_viewer.html index 3ee7b34..5f4d5e7 100644 --- a/docs/reference/spatial_map_viewer.html +++ b/docs/reference/spatial_map_viewer.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/split_phenotype_column.html b/docs/reference/split_phenotype_column.html index 5429e6e..9b1b07d 100644 --- a/docs/reference/split_phenotype_column.html +++ b/docs/reference/split_phenotype_column.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/split_phenotypes.html b/docs/reference/split_phenotypes.html index 9c8b3c2..3f3984b 100644 --- a/docs/reference/split_phenotypes.html +++ b/docs/reference/split_phenotypes.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/unmixing_quality_report.html b/docs/reference/unmixing_quality_report.html index 888ffdc..553dce6 100644 --- a/docs/reference/unmixing_quality_report.html +++ b/docs/reference/unmixing_quality_report.html @@ -75,7 +75,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/upset_plot.html b/docs/reference/upset_plot.html index a0c4132..247728e 100644 --- a/docs/reference/upset_plot.html +++ b/docs/reference/upset_plot.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_count_within_sheet.html b/docs/reference/write_count_within_sheet.html index ac82e63..7090911 100644 --- a/docs/reference/write_count_within_sheet.html +++ b/docs/reference/write_count_within_sheet.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_counts_sheet.html b/docs/reference/write_counts_sheet.html index fcb3491..a161779 100644 --- a/docs/reference/write_counts_sheet.html +++ b/docs/reference/write_counts_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_density_sheet.html b/docs/reference/write_density_sheet.html index 2561a85..ab2cb25 100644 --- a/docs/reference/write_density_sheet.html +++ b/docs/reference/write_density_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_expression_sheet.html b/docs/reference/write_expression_sheet.html index 23b22f6..c88d904 100644 --- a/docs/reference/write_expression_sheet.html +++ b/docs/reference/write_expression_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_h_score_sheet.html b/docs/reference/write_h_score_sheet.html index a6337d2..8220839 100644 --- a/docs/reference/write_h_score_sheet.html +++ b/docs/reference/write_h_score_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_nearest_neighbor_summary_sheet.html b/docs/reference/write_nearest_neighbor_summary_sheet.html index 7c7a40f..3775592 100644 --- a/docs/reference/write_nearest_neighbor_summary_sheet.html +++ b/docs/reference/write_nearest_neighbor_summary_sheet.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_percents_sheet.html b/docs/reference/write_percents_sheet.html index 9cf6f72..8eca17e 100644 --- a/docs/reference/write_percents_sheet.html +++ b/docs/reference/write_percents_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_plot_sheet.html b/docs/reference/write_plot_sheet.html index 7e749fe..b637d5c 100644 --- a/docs/reference/write_plot_sheet.html +++ b/docs/reference/write_plot_sheet.html @@ -72,7 +72,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_session_info.html b/docs/reference/write_session_info.html index 2c29107..2aedf88 100644 --- a/docs/reference/write_session_info.html +++ b/docs/reference/write_session_info.html @@ -73,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_sheet.html b/docs/reference/write_sheet.html index ac1c732..4540862 100644 --- a/docs/reference/write_sheet.html +++ b/docs/reference/write_sheet.html @@ -80,7 +80,7 @@ phenoptrReports - 0.2.12 + 0.2.13 diff --git a/docs/reference/write_summary_charts.html b/docs/reference/write_summary_charts.html index 653e5d4..47a41fb 100644 --- a/docs/reference/write_summary_charts.html +++ b/docs/reference/write_summary_charts.html @@ -40,9 +40,8 @@ - + @@ -74,7 +73,7 @@ phenoptrReports - 0.2.12 + 0.2.13 @@ -145,9 +144,8 @@

Create summary charts from the results of an analysis

-

Creates a Microsoft Word file or HTML report containing summary charts -derived from an analysis. The file type is determined by the file extension -of output_path, which must be either .docx or .html.

+

Creates a Microsoft Word document containing summary charts +derived from an analysis.

write_summary_charts(
diff --git a/docs/reference/write_summary_report.html b/docs/reference/write_summary_report.html
index b451ec4..729bae3 100644
--- a/docs/reference/write_summary_report.html
+++ b/docs/reference/write_summary_report.html
@@ -73,7 +73,7 @@
       
       
         phenoptrReports
-        0.2.12
+        0.2.13
       
     
 
diff --git a/docs/reference/write_summary_sheet.html b/docs/reference/write_summary_sheet.html
index adecffb..890cbc1 100644
--- a/docs/reference/write_summary_sheet.html
+++ b/docs/reference/write_summary_sheet.html
@@ -73,7 +73,7 @@
       
       
         phenoptrReports
-        0.2.12
+        0.2.13