From e2bdef5f51b253c96e41a9176149c14a5eaa383c Mon Sep 17 00:00:00 2001
From: Alexander Sandercock <39815775+alex-sandercock@users.noreply.github.com>
Date: Mon, 1 Jun 2026 15:32:53 -0400
Subject: [PATCH 1/2] Refactor SNP ID parsing to use regex extraction

Replaced separate with extract to parse SNP ID into CHROM and POS. Updated POS formatting to handle leading zeros.
---
 R/updog2vcf.R | 11 +++++++++--
 1 file changed, 9 insertions(+), 2 deletions(-)

diff --git a/R/updog2vcf.R b/R/updog2vcf.R
index 11c6635..82c846b 100644
--- a/R/updog2vcf.R
+++ b/R/updog2vcf.R
@@ -126,9 +126,16 @@ updog2vcf <- function(multidog.object, output.file, updog_version = NULL, RefAlt
 
   #CHROM and POS from SNP ID
   new_df <- mout$snpdf %>%
-    separate(snp, into = c("CHROM", "POS"), sep = "_") %>%
+    extract(
+      snp,
+      into = c("CHROM", "POS"),
+      regex = "^(.*)_([^_]*)$"
+    ) %>%
+    mutate(
+      POS = sub("^0+", "", POS),
+      POS = if_else(POS == "", "0", POS)
+    ) %>%
     select(CHROM, POS)
-  new_df$POS <- sub("^0+", "", new_df$POS)
 
   #Make the VCF df
   vcf_df <- data.frame(

From ef9bd7866ac774558cfdcd32e816fe5d54826a5d Mon Sep 17 00:00:00 2001
From: Alexander Sandercock <39815775+alex-sandercock@users.noreply.github.com>
Date: Mon, 1 Jun 2026 15:35:57 -0400
Subject: [PATCH 2/2] Bump version from 0.7.0 to 0.8.0

---
 DESCRIPTION | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/DESCRIPTION b/DESCRIPTION
index b71abd1..fbc9b5b 100644
--- a/DESCRIPTION
+++ b/DESCRIPTION
@@ -1,6 +1,6 @@
 Package: BIGr
 Title: Breeding Insight Genomics Functions for Polyploid and Diploid Species
-Version: 0.7.0
+Version: 0.8.0
 Authors@R: c(person(given='Alexander M.',
                     family='Sandercock',
                     email='sandercock.alex@gmail.com',