From 9520aa42eb1cd31ec00d844e610a9d073cfabbe1 Mon Sep 17 00:00:00 2001
From: 1dayac <1dayac@gmail.com>
Date: Wed, 1 May 2024 00:27:32 +0300
Subject: [PATCH] Noroviral assembly in docs

---
 docs/hmm.md | 3 +++
 1 file changed, 3 insertions(+)

diff --git a/docs/hmm.md b/docs/hmm.md
index adeb23782..ce08833a2 100644
--- a/docs/hmm.md
+++ b/docs/hmm.md
@@ -5,8 +5,11 @@ After this the subgraphs containing the set of matches ("domains") are extracted
 
 HMM-guided mode is enabled via providing a set of HMMs (`*.hmm.gz` file) via `--custom-hmms` option. In HMM-guided mode the set of contigs and scaffolds (see [SPAdes output](output.md#spades-output) section for more information ) is kept intact, however additional [biosyntheticSPAdes output](output.md#biosyntheticspades-output) represents the output of HMM-guided assembly.
 
+We provide an example of HMM utility in viral assembly, along with general advice on constructing HMM profile sets for various purposes, in our [paper on noroviral assembly](https://www.mdpi.com/2079-7737/12/8/1066).
+
 Note that normal biosyntheticSPAdes mode (via `--bio` option) is a bit different from HMM-guided mode: besides using the special set of profile HMMS representing a family of NRSP/PKS domains also includes a set of assembly graph simplification and processing settings aimed for fuller recovery of biosynthetic gene clusters.
 
+
 ## coronaSPAdes mode
 
 Given an increased interest in coronavirus research we developed a coronavirus assembly mode for SPAdes assembler (also known as coronaSPAdes).