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GaNDLF: the generally nuanced deep learning framework for scalable end-to-end clinical workflows

Authors: Pati, Sarthak; Thakur, Siddhesh P.; Hamamci, Ibrahim E.; Baid, Ujjwal; Baheti, Bhakti; Bhalerao, Megh; Orhun, Guley; +35 Authors

GaNDLF: the generally nuanced deep learning framework for scalable end-to-end clinical workflows

Abstract

What's Changed Updated version for development by @sarthakpati in https://github.com/mlcommons/GaNDLF/pull/732 Upgrade base python and numpy versions by @szmazurek in https://github.com/mlcommons/GaNDLF/pull/730 Updated docs for new python by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/737 Add error handling for brain age model by @1Pravi in https://github.com/mlcommons/GaNDLF/pull/710 Updated cosign installation by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/739 Upgrade base pandas version by @Ainesh06102004 in https://github.com/mlcommons/GaNDLF/pull/740 Making black version static by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/744 Revert to correct download location by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/745 Upgrade base torchmetrics version by @szmazurek in https://github.com/mlcommons/GaNDLF/pull/742 Consistent black across the codebase by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/746 Upgrade base PyTorch version by @szmazurek in https://github.com/mlcommons/GaNDLF/pull/747 Update installation link by @sarthakpati in https://github.com/mlcommons/GaNDLF/pull/748 Upgrade base torchio version by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/749 Update installation instructions by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/750 Updated the minimum and maximum python versions by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/751 Fixed the issue where a specific library prevents training to start by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/753 Minor documentation updates by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/754 Bump internal version by @dependabot in https://github.com/mlcommons/GaNDLF/pull/759 Fix for sample data download by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/766 Added documentation for extending optimizer and schedulers by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/764 Updated min devcontainer requirement by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/769 Ensure pip is available in environment path for devcontainers by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/770 Sync tests with openfl develop branch by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/772 Updated git command for speed by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/773 Consolidated a few checks by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/774 Added option to bias the patch extraction for label sampler by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/771 Added option to use different weights for sampler biasing and loss by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/777 Added option to not apply zero plane cropping for gandlf preprocess by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/779 Add optimizers monai by @Ainesh06102004 in https://github.com/mlcommons/GaNDLF/pull/781 Rename parseconfig for consistency by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/784 Upgrade pytorch and torchio versions by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/786 Added flowcharts for developers by @sarthakpati in https://github.com/mlcommons/GaNDLF/pull/789 Added an option for backwards compatibility for parseconfig by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/791 Updated openfl tests by @scap3yvt in https://github.com/mlcommons/GaNDLF/pull/787 Version updated for tagging by @sarthakpati in https://github.com/mlcommons/GaNDLF/pull/796 New Contributors @szmazurek made their first contribution in https://github.com/mlcommons/GaNDLF/pull/730 @1Pravi made their first contribution in https://github.com/mlcommons/GaNDLF/pull/710 @Ainesh06102004 made their first contribution in https://github.com/mlcommons/GaNDLF/pull/740 Full Changelog: https://github.com/mlcommons/GaNDLF/compare/0.0.17...0.0.18

If you use this software, please cite it using this manuscript.

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selected citations
These citations are derived from selected sources.
This is an alternative to the "Influence" indicator, which also reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Citations provided by BIP!
popularity
This indicator reflects the "current" impact/attention (the "hype") of an article in the research community at large, based on the underlying citation network.
BIP!Popularity provided by BIP!
influence
This indicator reflects the overall/total impact of an article in the research community at large, based on the underlying citation network (diachronically).
BIP!Influence provided by BIP!
impulse
This indicator reflects the initial momentum of an article directly after its publication, based on the underlying citation network.
BIP!Impulse provided by BIP!
0
Average
Average
Average