strkit 0.23.0a4__tar.gz → 0.23.0a5__tar.gz

{strkit-0.23.0a4/strkit.egg-info → strkit-0.23.0a5}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: strkit
-Version: 0.23.0a4
+Version: 0.23.0a5
 Summary: A toolkit for analyzing variation in short(ish) tandem repeats.
 Home-page: https://github.com/davidlougheed/strkit
 Author: David Lougheed
@@ -26,7 +26,7 @@ Requires-Dist: pydantic<3,>=2.11.7
 Requires-Dist: scikit-learn<1.8,>=1.2.1
 Requires-Dist: scipy<1.17,>=1.10
 Requires-Dist: statsmodels<0.15,>=0.14.0
-Requires-Dist: strkit_rust_ext==0.23.1
+Requires-Dist: strkit_rust_ext==0.23.2
 Dynamic: author
 Dynamic: author-email
 Dynamic: classifier
@@ -180,6 +180,9 @@ long read data should still work.
   additional downstream analysis possibilities.
   * Recommended for **HiFi data and ONT R10 data only**. In my testing, this worsens runtime and call quality for 
     ONT ultra-long-read data, but speeds up the tool and improves call quality for HiFi/ONT R10 data. 
+  * **Important note:** This functionality is best for whole-genome STR surveying. If hunting for rare / low-coverage
+    expansions, or using targeted sequencing data, it may be best to **NOT USE** an SNV catalog to avoid discording 
+    reads with short flanking regions.
 * Parallelized for faster computing on clusters and for ad-hoc fast analysis of single samples.
 * 95% confidence intervals on calls via a user-configurable optional parametric bootstrapping process.
 

{strkit-0.23.0a4 → strkit-0.23.0a5}/README.md

@@ -139,6 +139,9 @@ long read data should still work.
   additional downstream analysis possibilities.
   * Recommended for **HiFi data and ONT R10 data only**. In my testing, this worsens runtime and call quality for 
     ONT ultra-long-read data, but speeds up the tool and improves call quality for HiFi/ONT R10 data. 
+  * **Important note:** This functionality is best for whole-genome STR surveying. If hunting for rare / low-coverage
+    expansions, or using targeted sequencing data, it may be best to **NOT USE** an SNV catalog to avoid discording 
+    reads with short flanking regions.
 * Parallelized for faster computing on clusters and for ad-hoc fast analysis of single samples.
 * 95% confidence intervals on calls via a user-configurable optional parametric bootstrapping process.
 

{strkit-0.23.0a4 → strkit-0.23.0a5}/setup.py

@@ -23,7 +23,7 @@ setup(
         "scikit-learn>=1.2.1,<1.8",
         "scipy>=1.10,<1.17",
         "statsmodels>=0.14.0,<0.15",
-        "strkit_rust_ext==0.23.1",
+        "strkit_rust_ext==0.23.2",
     ],
 
     description="A toolkit for analyzing variation in short(ish) tandem repeats.",

strkit-0.23.0a5/strkit/VERSION

@@ -0,0 +1 @@
+0.23.0a5

{strkit-0.23.0a4 → strkit-0.23.0a5/strkit.egg-info}/PKG-INFO

@@ -1,6 +1,6 @@
 Metadata-Version: 2.4
 Name: strkit
-Version: 0.23.0a4
+Version: 0.23.0a5
 Summary: A toolkit for analyzing variation in short(ish) tandem repeats.
 Home-page: https://github.com/davidlougheed/strkit
 Author: David Lougheed
@@ -26,7 +26,7 @@ Requires-Dist: pydantic<3,>=2.11.7
 Requires-Dist: scikit-learn<1.8,>=1.2.1
 Requires-Dist: scipy<1.17,>=1.10
 Requires-Dist: statsmodels<0.15,>=0.14.0
-Requires-Dist: strkit_rust_ext==0.23.1
+Requires-Dist: strkit_rust_ext==0.23.2
 Dynamic: author
 Dynamic: author-email
 Dynamic: classifier
@@ -180,6 +180,9 @@ long read data should still work.
   additional downstream analysis possibilities.
   * Recommended for **HiFi data and ONT R10 data only**. In my testing, this worsens runtime and call quality for 
     ONT ultra-long-read data, but speeds up the tool and improves call quality for HiFi/ONT R10 data. 
+  * **Important note:** This functionality is best for whole-genome STR surveying. If hunting for rare / low-coverage
+    expansions, or using targeted sequencing data, it may be best to **NOT USE** an SNV catalog to avoid discording 
+    reads with short flanking regions.
 * Parallelized for faster computing on clusters and for ad-hoc fast analysis of single samples.
 * 95% confidence intervals on calls via a user-configurable optional parametric bootstrapping process.
 

{strkit-0.23.0a4 → strkit-0.23.0a5}/strkit.egg-info/requires.txt

@@ -7,4 +7,4 @@ pydantic<3,>=2.11.7
 scikit-learn<1.8,>=1.2.1
 scipy<1.17,>=1.10
 statsmodels<0.15,>=0.14.0
-strkit_rust_ext==0.23.1
+strkit_rust_ext==0.23.2

strkit-0.23.0a4/strkit/VERSION

@@ -1 +0,0 @@
-0.23.0a4