From 3aa0137716e534c8b6619d955b880758ca8054c0 Mon Sep 17 00:00:00 2001
From: tcezard <tcezard@ebi.ac.uk>
Date: Wed, 18 Jun 2025 12:40:15 +0100
Subject: [PATCH] Add succinct description of refget sequence collection in
 metadata

---
 VCFv4.5.tex | 8 ++++++++
 1 file changed, 8 insertions(+)

diff --git a/VCFv4.5.tex b/VCFv4.5.tex
index 0530513b..ed368883 100644
--- a/VCFv4.5.tex
+++ b/VCFv4.5.tex
@@ -357,6 +357,14 @@ \subsubsection{Pedigree field format}
 \noindent See \ref{PedigreeInDetail} for details.
 
 
+\subsubsection{Sequence collection format}
+The reference sequences can be recorded as a sequence collection identifier\footnote{\url{https://ga4gh.github.io/refget/seqcols/}}
+\begin{verbatim}
+##seqcol=<ID=ga4gh:SC.hsgd70lp87g2u8sgsnd0g2fxxc,url=ga4gh_resolver_url>
+\end{verbatim}
+The ID section should contain the sequence collection identifier of the reference sequence that was used to generate the VCF prefixed with ga4gh:SC.
+Only one refget-seqcol entry can be added per VCF.
+
 \subsection{Header line syntax}
 \label{header-line}
 The mandatory header line names the 8 fixed, mandatory columns. These columns are as follows: