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Simon Biggs SimonBiggs

Medical Physicist who loves Python. Maintainer of PyMedPhys.

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143 followers · 232 following · 291

Riverina Cancer Care Centre
Australia, NSW
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http://simonbiggs.net

Highlights

Arctic Code Vault Contributor

Organizations

Pinned

pymedphys/pymedphys

A community effort to develop an open standard library for Medical Physics in Python. Building quality transparent software together via peer review and open source distribution. Open code is bette…

Jupyter Notebook 89 23
scriptedforms Archived

Quickly create live-update GUIs for Python packages using Markdown and simple HTML elements.

TypeScript 504 32
npgamma Archived

Using numpy broadcasting to find the gamma index

Jupyter Notebook 18 6
brachytherapy-dicom-utilities

A series of notebooks created for the purpose of exploring brachytherapy dicom files

HTML 7 3

3,799 contributions in the last year

Activity overview

Contributed to pymedphys/pymedphys, pymedphys/pymedphys-archive-2020, Wagga-Church-of-Christ/wagga-church-of-christ and 5 other repositories

Contribution activity

October 2020

SimonBiggs/installer-framework C++ Oct 8

Created a pull request in pymedphys/pymedphys that received 4 comments

Add baseline dicom dict back into repo

So that internet connection isn't needed to run.

+29,792 −23 • 4 comments

_trf/header.py improvements Oct 15
Support dutch timestamp within headers Oct 14
Support for headers with other date format [take 2] Oct 14
install pandoc in on-updates workflow Oct 8
Demonstrate nbconvert breaking docs build Oct 8
Demonstrate unpinning scipy and running poetry update Oct 8
Make docs building also be checked during updates workflow Oct 8
Run poetry update Oct 8
Logos for linkedin Oct 8
Demo nn Oct 2
Bump CI to Python 3.8, make pymssql install for all python versions Oct 1

[MRG] Add 'user' extras to pymedphys install Oct 3

_trf/header.py improvements Oct 15
Support dutch timestamp within headers Oct 15
Demonstrate nbconvert breaking docs build Oct 8

Adding experimental_rerun Oct 8

Created an issue in jupyter/nbconvert that received 6 comments

Upgrading from 6.0.6 --> 6.0.7 appears to break nbsphinx usage

I use nbsphinx to use Notebooks within the documentation of the pymedphys library. For example: https://docs.pymedphys.com/howto/gamma/effect-of-no…

6 comments

Gamma inter-comparison Oct 21
Ideas for JAX based collapsed cone algorithm Oct 21
Creating a Python Android APK Oct 15
Kubernetes 101 Oct 15
TRF header.py improvements Oct 15
An interesting overview on open source sustainability Oct 13
An interesting opinion on the usage of AGPL for open source software as a service Oct 13
Add the online mu density logfile comparison demo to the docs Oct 13
"Human first AI" Oct 8
Create a binary Oct 8
Create a binary with PyOxidiser Oct 8
nnUNet Oct 4
Semantic Segmentation Oct 3
Contrastive Training for Improved Out-of-Distribution Detection Oct 2
Document config.toml Oct 2
Make `user` packages install when the `tests` group are set Oct 2
Updates for the documentation of installation Oct 1

Plausibility of including DICOMautomaton with PyMedPhys Oct 15

Rerun when file system/database/some other external data source changes Oct 14

Broadcasting error when using the lung medical decathlon dataset Oct 5

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