Merge pull request astheeggeggs#139 from szhan/allow_invariant_sites

Allow for invariant sites in input data
szhan · Jun 24, 2024 · b095f74 · b095f74
2 parents 4f9e966 + 47dad7f
commit b095f74
Showing 1 changed file with 0 additions and 4 deletions.
diff --git a/lshmm/api.py b/lshmm/api.py
@@ -160,10 +160,6 @@ def check_inputs(
                 query_unraveled[:, i] = np.array([core.MISSING, core.MISSING])
         num_alleles = core.get_num_alleles(reference_panel, query_unraveled)
 
-    if not np.all(num_alleles > 1):
-        err_msg = "Some sites have less than two distinct alleles."
-        raise ValueError(err_msg)
-
     # Calculate the emission probability matrix.
     if ploidy == 1:
         emission_matrix = core.get_emission_matrix_haploid(