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added GPU accelerated read_mtx function #85

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LouisFaure wants to merge 3 commits into scverse:main from LouisFaure:read_mtx

LouisFaure commented Oct 24, 2023

I bring my initial implementation of read_mtx_gpu from gpu branch of scanpy, now available at rsc.read_mtx! Here are some infos:

I added an option to keep the loaded matrix in cupy sparse in the new anndata.
By default the function uses cudf to load the mtx. There is also dask-cudf bakend option available as it might help for out of memory loading, but I do not think it is then necessary to include dask-cudf as a pip requirement (but can be otherwise).

LouisFaure and others added 3 commits

October 24, 2023 20:58


          added GPU accelerated read_mtx function

f03dba6


          [pre-commit.ci] auto fixes from pre-commit.com hooks

3a923ac

for more information, see https://pre-commit.ci


          Merge branch 'main' into read_mtx

f2c105b

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