https://egeulgen.github.io/pathfindR_blog/ Recent content on pathfindR Blog Hugo en-US Tue, 23 Jun 2026 00:00:00 +0000 https://egeulgen.github.io/pathfindR_blog/about/ Tue, 23 Jun 2026 00:00:00 +0000 https://egeulgen.github.io/pathfindR_blog/about/ <p>This is the blog for <strong>pathfindR</strong>, an R package for enrichment analysis via active subnetworks. Here you&rsquo;ll find release notes, tutorials, worked examples, and the occasional note on what&rsquo;s changing under the hood.</p> <p>pathfindR is developed and maintained by Ege Ulgen. For documentation and function references, head to the <a href="https://egeulgen.github.io/pathfindR/">package website</a>; for the source and issues, see <a href="https://github.com/egeulgen/pathfindR">GitHub</a>.</p> https://egeulgen.github.io/pathfindR_blog/2026/06/23/pathfindr-relese-3.0.0/ Tue, 23 Jun 2026 00:00:00 +0000 https://egeulgen.github.io/pathfindR_blog/2026/06/23/pathfindr-relese-3.0.0/ <h2 id="what-is-pathfindr">What is pathfindR?</h2> <p><code>pathfindR</code> is an R package for <strong>enrichment analysis via active subnetworks</strong>. Conventional enrichment methods ignore protein&ndash;protein interaction (PPI) information, which can leave the picture incomplete. pathfindR&rsquo;s main function identifies active subnetworks in a protein-protein interaction network using a user-provided list of genes and associated p values, then performs enrichment analyses on those subnetworks to identify enriched terms (pathways, or more broadly, gene sets) that may underlie the phenotype of interest.</p>