From: Jim Procter <jprocter@dundee.ac.uk>
Date: Tue, 17 Sep 2024 20:21:28 +0000 (+0100)
Subject: JAL-4159 pasimap viewer image for docs
X-Git-Tag: Release_2_11_4_0~4^2~1
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=17461ae91a48f78a582ba2566364e7c7d778c87e;p=jalview.git

JAL-4159 pasimap viewer image for docs
---

diff --git a/help/help/html/calculations/pasimap.html b/help/help/html/calculations/pasimap.html
index 249c528..e6bcbc8 100755
--- a/help/help/html/calculations/pasimap.html
+++ b/help/help/html/calculations/pasimap.html
@@ -66,7 +66,7 @@
 	features lie on similar projected angles to the origin, and their distance
 	only affected by 'random variation'.
   </p>
-  <p>  <img src="pasimapviewer.png">
+  <p>  <img src="pasimapviewer.png" width="600px">
   <p>
     <strong>The PaSiMap Viewer</strong>
   </p>
@@ -106,7 +106,7 @@
       from i->j and j->i, conditioned matrix to be diagonalised,
       tridiagonal form, major eigenvalues found)</li>
     <li>Output Points - The eigenvector matrix - rows correspond to
-      sequences, columns correspond to each dimension in the PCA</li>
+      sequences, columns correspond to each dimension of the projected space.</li>
     <li>Transformed Points - The 3D coordinates for each sequence
       as shown in the PaSiMap plot</li>
   </ul>
diff --git a/help/help/html/calculations/pasimapviewer.png b/help/help/html/calculations/pasimapviewer.png
new file mode 100644
index 0000000..f40dd39
Binary files /dev/null and b/help/help/html/calculations/pasimapviewer.png differ