diff --git a/CHANGELOG.md b/CHANGELOG.md
index 094873a..dea76e4 100644
--- a/CHANGELOG.md
+++ b/CHANGELOG.md
@@ -3,6 +3,7 @@
 ### Added
 
 ### Fixed
+ - Handle alt types for emmtyper
 
 ### Changed
 
diff --git a/prp/models/typing.py b/prp/models/typing.py
index 4d04e00..4307ee8 100644
--- a/prp/models/typing.py
+++ b/prp/models/typing.py
@@ -103,9 +103,9 @@ class TypingResultEmm(RWModel):
     """Container for emmtype gene information"""
 
     cluster_count: int
-    emmtype: str
-    emm_like_alleles: list[str]
-    emm_cluster: str
+    emmtype: str | None = None
+    emm_like_alleles: list[str] | None = None
+    emm_cluster: str | None = None
 
 
 class EmmTypingMethodIndex(RWModel):
diff --git a/prp/parse/phenotype/emmtyper.py b/prp/parse/phenotype/emmtyper.py
index 0e4049a..65eefa3 100644
--- a/prp/parse/phenotype/emmtyper.py
+++ b/prp/parse/phenotype/emmtyper.py
@@ -16,6 +16,7 @@ def parse_emmtyper_pred(path: str) -> EmmTypingMethodIndex:
     pred_result = []
     df = pd.read_csv(path, sep='\t', header=None)
     df.columns = ["sample_name", "cluster_count", "emmtype", "emm_like_alleles", "emm_cluster"]
+    df.replace(["-", ""], None, inplace=True)
     df_loa = df.to_dict(orient="records")
     for emmtype_array in df_loa:
         emmtype_results = _parse_emmtyper_results(emmtype_array)
@@ -31,10 +32,9 @@ def parse_emmtyper_pred(path: str) -> EmmTypingMethodIndex:
 
 def _parse_emmtyper_results(info: dict[str, Any]) -> TypingResultEmm:
     """Parse emm gene prediction results."""
-    emm_like_alleles = info["emm_like_alleles"].split(";")
+    emm_like_alleles = info["emm_like_alleles"].split(";") if not pd.isna(info["emm_like_alleles"]) else None
     return TypingResultEmm(
-        # info
-        cluster_count=info["cluster_count"],
+        cluster_count=int(info["cluster_count"]),
         emmtype=info["emmtype"],
         emm_like_alleles=emm_like_alleles,
         emm_cluster=info["emm_cluster"],