edited README.md

sanger-tol · Dec 1, 2021 · d59cf7c · d59cf7c
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diff --git a/README.md b/README.md
@@ -436,7 +436,7 @@ By default the clustering will be run with `n_neighbors` set to 5, 10, 15, 20, 5
 
 [warning this can run slowly when run remotely]
 
-[Here](images/parameter_selection/parameters.html) is example output of the `gda clustering_params` run with the _Plasmodium falciparum_ assembly.
+[Here](images/pfalciparum_gda_parameters_example.pdf) is example output of the `gda clustering_params` run with the _Plasmodium falciparum_ assembly.
 
 We recommend selecting parameters based on minimising the percentage of unclassified sequence, while getting at least two clusters. E.g.:
 

diff --git a/images/parameter_selection/clustering_metrics.csv b/images/parameter_selection/clustering_metrics.csv
diff --git a/images/parameter_selection/parameters.html b/images/parameter_selection/parameters.html
diff --git a/images/parameter_selection/umap_clustering_n10_c100.png b/images/parameter_selection/umap_clustering_n10_c100.png
diff --git a/images/parameter_selection/umap_clustering_n10_c200.png b/images/parameter_selection/umap_clustering_n10_c200.png
diff --git a/images/parameter_selection/umap_clustering_n10_c50.png b/images/parameter_selection/umap_clustering_n10_c50.png
diff --git a/images/parameter_selection/umap_clustering_n10_c500.png b/images/parameter_selection/umap_clustering_n10_c500.png
diff --git a/images/parameter_selection/umap_clustering_n15_c100.png b/images/parameter_selection/umap_clustering_n15_c100.png
diff --git a/images/parameter_selection/umap_clustering_n15_c200.png b/images/parameter_selection/umap_clustering_n15_c200.png
diff --git a/images/parameter_selection/umap_clustering_n15_c50.png b/images/parameter_selection/umap_clustering_n15_c50.png
diff --git a/images/parameter_selection/umap_clustering_n15_c500.png b/images/parameter_selection/umap_clustering_n15_c500.png
diff --git a/images/parameter_selection/umap_clustering_n20_c100.png b/images/parameter_selection/umap_clustering_n20_c100.png
diff --git a/images/parameter_selection/umap_clustering_n20_c200.png b/images/parameter_selection/umap_clustering_n20_c200.png
diff --git a/images/parameter_selection/umap_clustering_n20_c50.png b/images/parameter_selection/umap_clustering_n20_c50.png
diff --git a/images/parameter_selection/umap_clustering_n20_c500.png b/images/parameter_selection/umap_clustering_n20_c500.png
diff --git a/images/parameter_selection/umap_clustering_n5_c100.png b/images/parameter_selection/umap_clustering_n5_c100.png
diff --git a/images/parameter_selection/umap_clustering_n5_c200.png b/images/parameter_selection/umap_clustering_n5_c200.png
diff --git a/images/parameter_selection/umap_clustering_n5_c50.png b/images/parameter_selection/umap_clustering_n5_c50.png
diff --git a/images/parameter_selection/umap_clustering_n5_c500.png b/images/parameter_selection/umap_clustering_n5_c500.png
diff --git a/images/pfalciparum_gda_parameters_example.pdf b/images/pfalciparum_gda_parameters_example.pdf