add pathway piece

README.md

@@ -5,6 +5,9 @@ This software package implements three well-calibrated statistical methods for a
 2. genes recurrently impacted by inherited compound heterozygous variants across the cohort
 3. genes harboring significant compound heterozygous variants in individual patients
 
+Our [RaMeDiES wiki](https://github.com/hms-dbmi/RaMeDiES/wiki) also details how we ran our [pathway analysis](https://github.com/hms-dbmi/RaMeDiES/wiki/Pathway-analysis) to find biologically-related groups of genes impacted with 
+candidate variants across phenotypically similar patients.
+
 If you use RaMeDiES in your work, please cite our publication: 
 > SN Kobren*, MA Moldovan*, R Reimers, D Traviglia, X Li, D Barnum, A Veit, J Willett, M Berselli, W Ronchetti, R Sherwood, J Krier, IS Kohane, Undiagnosed Diseases Network, SR Sunyaev (2024). "Joint, multifaceted genomic analysis enables diagnosis of diverse, ultra-rare monogenic presentations." _bioRxiv._ doi: [10.1101/2024.02.13.580158](https://www.biorxiv.org/content/10.1101/2024.02.13.580158v1).
 
@@ -40,6 +43,7 @@ Descriptions of, sample code for running, and customizable parameters for the fo
 * [Cohort-level _de novo_ recurrence](https://github.com/hms-dbmi/RaMeDiES/wiki/Cohort-level-de-novo-recurrence)
 * [Cohort-level compound heterozygosity](https://github.com/hms-dbmi/RaMeDiES/wiki/Cohort-level-compound-heterozygosity)
 * [Individual-level compound heterozygosity](https://github.com/hms-dbmi/RaMeDiES/wiki/Individual-level-compound-heterozygosity)
+* [Gene set enrichment across patient subgroups](https://github.com/hms-dbmi/RaMeDiES/wiki/Pathway-analysis)
 
 :exclamation: Our statistical models operate at the level of "mutational targets" rather than individual-level variant data. These intermediate computed files can be shared freely to enable cross-cohort meta-analyses! See our [enabling cross-cohort analyses](https://github.com/hms-dbmi/RaMeDiES/wiki/Metaanalyses) wiki page for more details.