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Proposal: Out-of-core Random Forest Classifier for Ag1000G using Dask Label issues #223: Issue #1342 opened by Schronding
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custom colours in ag3.plot_haplotype_network Label issues #222: Issue #1340 opened by EricRLucas
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Computing kinship coefficients Label issues #221: Issue #1337 opened by tristanpwdennis
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PCA downsampling not behaving as expected. Label issues #220: Issue #1336 opened by KellyLBennett
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Change in metadata structure of Pf9 Label issues #219: Issue #1333 opened by jonbrenas
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pca's cohorts argument does not work the way it is expected to Label issues #218: Issue #1328 opened by jonbrenas
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'As1(pre=True)` fails to find any sample set Label issues #217: Issue #1327 opened by jonbrenas
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Test access to BAMs and VCFs on ENA/EVA with IGV Label issues #216: Issue #1325 opened by jonbrenas
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Add As to README Label issues #215: Issue #1323 opened by ahernank
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Typos on Adar Label issues #214: Issue #1321 opened by ahernank
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Add missing stacklevel to warnings Label issues #213: Issue #1317 opened by 31puneet
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veff.py: in-frame complex variants (MNP+INDEL) return literal "TODO" string as effect — invalid scientific output Label issues #212: Issue #1315 opened by Tanisha127
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cnv_frq.py Hardcodes X-Chromosome Sex-Linked Ploidy Assumption — Breaks CNV Frequency Analysis for Non-Gambiae Species Label issues #211: Issue #1313 opened by khushthecoder
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ipinfo Location Check Silently Swallows All Network Errors With No Logging or Fallback Notification Label issues #210: Issue #1311 opened by kunal-10-cloud
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dask.config.set() at Module Import Time in ag3.py Silently Modifies Global Dask Configuration Label issues #209: Issue #1308 opened by khushthecoder
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sys.setrecursionlimit(10_000) in hapclust/dipclust Permanently Alters Global Python State Label issues #208: Issue #1305 opened by kunal-10-cloud
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Cloud Storage Access (GCS/S3) Has No Retry, Backoff, or Timeout Configuration Label issues #207: Issue #1303 opened by khushthecoder
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CI Coverage Workflow Has Two Blind Spots — Excludes Root Modules and Uses Outdated Codecov Action Label issues #206: Issue #1301 opened by kunal-10-cloud
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Integration Test and Notebook CI Workflows Use Hardcoded GCS Cache Key From September 2024 Label issues #205: Issue #1296 opened by kunal-10-cloud
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Unsanitized User Input Passed to DataFrame.eval() Enables Arbitrary Code Execution Label issues #204: Issue #1292 opened by kunal-10-cloud
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No Public API to Clear or Inspect In-Memory Caches — Users Cannot Reclaim Memory in Long-Running Sessions Label issues #203: Issue #1289 opened by khushthecoder
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diversity_stats doesn't have a max_cohort_size parameter Label issues #202: Issue #1288 opened by jonbrenas
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fix: geneset() and snp_dataset() are deprecated but emit no DeprecationWarning Label issues #201: Issue #1285 opened by Tanisha127
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snp_calls_to_vcf() silently drops requested FORMAT fields when underlying data arrays don't exist Label issues #200: Issue #1283 opened by Yashsingh045
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snp_calls_to_vcf() — Python-level per-sample loop creates severe performance bottleneck for large cohorts Label issues #199: Issue #1280 opened by khushthecoder
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