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Created tests/conftest.py with mocks for all missing dependencies to allow pytest to run tests. Label issues #190: Issue #1242 opened by karthik642006
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Add End-to-End Usage Examples and Real-World Analysis Workflow in README Label issues #189: Issue #1238 opened by lovelymahor
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Standardize test randomization using np.random Label issues #188: Issue #1237 opened by Yashsingh045
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Add pytest configuration to pyproject.toml Label issues #187: Issue #1231 opened by kunal-10-cloud
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Broken Image Links for Anopheles Funetus and Anopheles Minimus in Docs Label issues #186: Issue #1228 opened by kaloyan-georgiev
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Narrow Overly Broad Exception Handlers Label issues #185: Issue #1225 opened by kunal-10-cloud
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Seed random in test suite to eliminate CI flakiness Label issues #184: Issue #1223 opened by Yashsingh045
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Add type annotations to snp_data.py (AnophelesSnpData) Label issues #183: Issue #1221 opened by Yashsingh045
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Add __repr__ to Region and CacheMiss utility classes for better debugging Label issues #182: Issue #1219 opened by Yashsingh045
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# Make _jitter() accept an optional random_state parameter Label issues #181: Issue #1217 opened by khushthecoder
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Performance Optimization for cohort_heterozygosity() Label issues #180: Issue #1211 opened by kunal-10-cloud
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Fix broken constructor chain after #1195 refactor — aim_ids, gff_gene_type and related params no longer forwarded to subclasses Label issues #179: Issue #1209 opened by khushthecoder
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Migrate gene_cnv() from AnophelesCnvFrequencyAnalysis to AnophelesCnvData (resolves dipclust.py TODO) Label issues #178: Issue #1208 opened by khushthecoder
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_surveillance_flags raises NotImplementedError instead of warning and returning empty DataFrame Label issues #177: Issue #1206 opened by khushthecoder
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Fix macOS setup: pip extras not defined, dev dependencies not installed Label issues #176: Issue #1204 opened by jhhornn
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Fix broken image links in documentation Label issues #175: Issue #1202 opened by wenebob
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Unimplemented In-Frame Complex Variant Classification Label issues #174: Issue #1200 opened by kunal-10-cloud
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fragile cache name property pattern for _xpehh_gwss_cache_name and _ihs_gwss_cache_name Label issues #173: Issue #1198 opened by kunal-10-cloud
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Refactor: Move hardcoded species-specific parameters to a unified configuration schema Label issues #172: Issue #1194 opened by khushthecoder
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Type Validation Silently Fails with Python Optimization Flag (-O) Label issues #171: Issue #1191 opened by kunal-10-cloud
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veff.py caches genome data in an unbounded dict — memory leak for multi-contig analyses Label issues #170: Issue #1189 opened by kunal-10-cloud
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Add helper to compute simple SNP feature matrix for ML workflows Label issues #169: Issue #1185 opened by ishaniray1
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Improve error messaging when haplotypes_frequencies_advanced yields no cohorts Label issues #168: Issue #1170 reopened by karthik642006
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Improve validation for genomic region parsing in _handle_region_coords Label issues #167: Issue #1182 opened by vinitjain2005
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Enhance variant effect annotation: classify in-frame complex variants properly in veff.py Label issues #166: Issue #1180 opened by vinitjain2005
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