From f72873550e90012afd50074b0dc856619f8ad31c Mon Sep 17 00:00:00 2001
From: percolator <95488+percolator@users.noreply.github.com>
Date: Thu, 21 May 2026 16:21:50 +0000
Subject: [PATCH] Update interface docs from percolator source

---
 _posts/2010-10-27-interface.textile | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/_posts/2010-10-27-interface.textile b/_posts/2010-10-27-interface.textile
index 709092e..8e029c6 100644
--- a/_posts/2010-10-27-interface.textile
+++ b/_posts/2010-10-27-interface.textile
@@ -77,7 +77,7 @@ h2. percolator
     <tr><td><em>[experimental]</em><br/><code>--composition-match</code></td><td>Run an implementation of the Percolator-RESET psmsAndPeptides with target-decoy matching based on composition.</td></tr>
     <tr><td><code>-RT</code>, <code>--output-retention-time</code></td><td>Add a retention time column to the output file.</td></tr>
     <tr><td><code>--irls-pep</code></td><td>Calculate PEPs using a cubic spline fitted using penalized log-likelihood fitting as described in PMID:18689838. This used to be the default method.</td></tr>
-    <tr><td><em>[experimental]</em><br/><code>--ip-pep</code></td><td>Use scores instead of rank as independent variable when calculating PEPs.</td></tr>
+    <tr><td><code>--rank-pep</code></td><td>Use rank instead of score as independent variable when calculating PEPs.</td></tr>
     <tr><td><em>[experimental]</em><br/><code>--pava-pep</code></td><td>Calculate PEPs using PAVA isotonic regression.</td></tr>
   </tbody>
 </table>