Making read depth linked calculation as a circular sequence and refin…

…ing other functions such as calculating Major and minor alleles based on Genotype Likelihoods
RacimoLab · Aug 22, 2024 · a0993df · a0993df
1 parent 106a672
commit a0993df
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Showing 5 changed files with 4,293 additions and 107 deletions.
diff --git a/cython_constraint.txt b/cython_constraint.txt
@@ -0,0 +1 @@
+Cython<3
diff --git a/notebook/simGL.ipynb b/notebook/simGL.ipynb
diff --git a/simGL/__init__.py b/simGL/__init__.py
@@ -1 +1,9 @@
-from .simGL import incorporate_monomorphic, depth_per_haplotype, sim_allelereadcounts, allelereadcounts_to_GL, GL_to_Mm, allelereadcounts_to_pileup
+from .simGL import (
+    incorporate_monomorphic,
+    depth_per_haplotype,
+    sim_allelereadcounts,
+    allelereadcounts_to_GL,
+    GL_to_Mm,
+    subset_GL,
+    allelereadcounts_to_pileup,
+)