Merge pull request #36 from AlexandrovLab/mm39-centromeres

v1.2.1: Add centromere coordinates for mm39

Author: mdbarnesUCSD

CHANGELOG.md

@@ -6,6 +6,11 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/),
 
 ## [Unreleased]
 
+## [1.2.1] - 2025-04-02
+
+### Changed
+- Add centromere coordinates for mm39 genome.
+
 ## [1.2.0] - 2024-02-24
 
 ### Changed

SigProfilerClusters/SigProfilerClusters.py

@@ -778,6 +778,29 @@ def analysis(
             "X": [58632012, 61632012],
             "Y": [10316945, 10544039],
         },
+        "mm39": {
+            "1": [110000, 3000000],
+            "10": [110000, 3000000],
+            "11": [110000, 3000000],
+            "12": [110000, 3000000],
+            "13": [110000, 3000000],
+            "14": [110000, 3000000],
+            "15": [110000, 3000000],
+            "16": [110000, 3000000],
+            "17": [110000, 3000000],
+            "18": [110000, 3000000],
+            "19": [110000, 3000000],
+            "2": [110000, 3000000],
+            "3": [110000, 3000000],
+            "4": [110000, 3000000],
+            "5": [110000, 3000000],
+            "6": [110000, 3000000],
+            "7": [110000, 3000000],
+            "8": [110000, 3000000],
+            "9": [110000, 3000000],
+            "X": [110000, 3000000],
+            "Y": [110000, 3000000],
+        },
         "mm10": {
             "1": [110000, 3000000],
             "10": [110000, 3000000],

SigProfilerClusters/version.py

@@ -1,7 +1,7 @@
 
 # THIS FILE IS GENERATED FROM SIGPROFILECLUSTERS SETUP.PY
-short_version = '1.2.0'
-version = '1.2.0'
-Update = 'v1.2.0: Require Pandas and Numpy >= 2.0.0 and Python >= 3.9'
+short_version = '1.2.1'
+version = '1.2.1'
+Update = 'v1.2.1: Add centromere coordinates for mm39'
 
 

setup.py

@@ -17,7 +17,7 @@ def readme():
     # 	return(f.read())
 
 
-VERSION = "1.2.0"
+VERSION = "1.2.1"
 
 
 def write_version_py(filename="SigProfilerClusters/version.py"):
@@ -26,7 +26,7 @@ def write_version_py(filename="SigProfilerClusters/version.py"):
 # THIS FILE IS GENERATED FROM SIGPROFILECLUSTERS SETUP.PY
 short_version = '%(version)s'
 version = '%(version)s'
-Update = 'v1.2.0: Require Pandas and Numpy >= 2.0.0 and Python >= 3.9'
+Update = 'v1.2.1: Add centromere coordinates for mm39'
 	
 	"""
     fh = open(filename, "w")
@@ -56,8 +56,8 @@ def write_version_py(filename="SigProfilerClusters/version.py"):
     install_requires=[
         "matplotlib>=3.5",
         "sigProfilerPlotting>=1.4.0",
-        "SigProfilerMatrixGenerator>=1.3.0",
-        "SigProfilerSimulator>=1.2.0",
+        "SigProfilerMatrixGenerator>=1.3.2",
+        "SigProfilerSimulator>=1.2.1",
         "statsmodels>=0.9.0",
         "scipy>=1.1.0",
         "pandas>=2.0.0",