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related-sciences
/
gwas-analysis
GWAS data analysis experiments
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24
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8
Issues:
32
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6
related-sciences/gwas-analysis Issues
PyData prototype genetics method implementations
Updated
3 years ago
Add small representative numpy vs breeze benchmarks
Closed
4 years ago
Comments count
4
PyData prototype IO
Closed
4 years ago
Comments count
7
PyData PC-Relate Integration
Closed
4 years ago
Comments count
1
Remove dataset wrappers in prototype core.py
Updated
4 years ago
Create pytest fixture to parameterize dask scheduler
Updated
4 years ago
Explore Xarray as the basis for a genetic toolkit API
Closed
4 years ago
Comments count
2
Zarr/packgeneticbits invalid missing values encoding
Closed
4 years ago
Comments count
1
PyData prototype LD prune implementation
Closed
4 years ago
Comments count
13
Determine core operations necessary in general-purpose GWAS toolkits
Closed
4 years ago
Comments count
3
PyData prototype simulation methods
Updated
4 years ago
Comments count
5
PyData prototype package, repo, and directory structure
Updated
4 years ago
Comments count
1
Build PyData prototype for GWAS analysis
Updated
4 years ago
Comments count
3
Use of pydantic for PyData prototype?
Updated
4 years ago
Comments count
3
Try CuPy integration w/ Dask to see what, if any, operations benefit from GPU acceleration
Updated
4 years ago
Comments count
3
Define Xarray data structures for PyData prototype
Updated
4 years ago
PyData prototype backend dispatching
Updated
4 years ago
Comments count
3
Try to quantify some assertions
Updated
4 years ago
PyData prototype testing
Updated
4 years ago
How can you statically type a duck array?
Closed
4 years ago
Define data structures that would accommodate general purpose genetic workflows
Closed
4 years ago
Comments count
11
Hard-coded path in almond kernel
Closed
4 years ago
Related work from TOPMed
Closed
4 years ago
Comments count
1
Try Python accelerators on Dask prototype
Updated
4 years ago
Comments count
1
Enumerate cohort-specific QC
Updated
4 years ago
Use asv for benchmarks of Dask/Ray prototype
Updated
4 years ago
Comments count
1
Possibly include qctool in benchmarks
Updated
4 years ago
Try Ray as alternative to Dask in prototype
Updated
4 years ago
Try sparse arrays in Dask prototypes
Updated
4 years ago
Comments count
1
Association tests for large cohorts
Updated
4 years ago
Include WES and WGS QC workloads
Updated
4 years ago
Determine why Hail population stratification results have minor, irritating differences from PLINK results
Closed
4 years ago
Comments count
1