davide poggiali

multiAtlasTT. multi atlas transfer tools for neuroimaging (maTT)

PtitPrince. python version of raincloud

euroscipy2022-annotations.

ResizeRight. The correct way to resize images or tensors. For Numpy or Pytorch (differentiable).

SynthSeg. Contrast-agnostic segmentation of MRI scans

nbterm. Jupyter Notebooks in the terminal.

tad. A desktop application for viewing and analyzing tabular data

rbf-fd. MATLAB

ResizeRight. The correct way to resize images or tensors. For Numpy or Pytorch (differentiable).

RippaExtCV. MATLAB

GraphBasisFunctions. Jupyter Notebook

VKOGA. Python implementation of the VKOGA algorithm.

cygrid. Cygrid is a cython-powered convolution-based gridding module for astronomy

youtube-dl. Command-line program to download videos from YouTube.com and other video sites

Instagram-DeepFake-Bot. An Instagram Bot serving as an account, people can use to create DeepFakes on Instagram.

matplotlib-3d. Experimental 3D axis for matplotlib

mrpeek. A medical image viewer in the terminal.

Exact_sinogram. Jupyter Notebook

mccabe. McCabe complexity checker for Python

covid19-charts. covid19 interactive charts

panwriter. Markdown editor with pandoc integration and paginated preview.

mridefacer. Helper to aid de-identification of MRI images (3D or 4D)

VSK_ML. Python code for the extension of the VSKs setting to machine learning applications with SVMs

pelican-page-hierarchy. A Pelican plugin that creates a URL hierarchy for pages that matches the filesystem hierarchy of their sources.

markdown-preview-enhanced. One of the 'BEST' markdown preview extensions for Atom editor!

paroleitaliane. Liste di parole italiane

homebrew-bundle. 💀 Homebrew/bundle (merged into Homebrew/brew)

brainhackzg2018.github.io. Website for the Brainhack Zagreb 2018 event (archive)

ANTsRPy. ANTs in both R and python

lime. Lime: Explaining the predictions of any machine learning classifier

fx_cast. Chromecast Web Sender SDK implementation for Firefox

atlasreader. Python interface for generating coordinate tables and region labels from statistical MRI images

noiseclean. A simple bash script to remove audio noise from audio and videos files.

cns-imaging-tools. Reproducible neuroimaging pipeline and tools for the MAP Lab and for Queen's Centre for Neuroscience Studies (CNS).

homemade-machine-learning. 🤖 Python examples of popular machine learning algorithms with interactive Jupyter demos and math being explained

DiceMapGenerator. Generates a dice map from an image

m2g. NeuroData's MRI to Graphs (m2g) - connectome estimation package and pipeline

nifti_matlab. Matlab for NIFTI support

pycortex. Pycortex is a python-based toolkit for surface visualization of fMRI data

advanced_fMRI_course. List of ressources and practicals used for the fMRI data analysis course of UoB (UK) (2014-2017)

indico. Indico - A feature-rich event management system, made @ CERN, the place where the Web was born.

awesome-python-data-science. A curated list of Python libraries used for data science.

etcher. Flash OS images to SD cards & USB drives, safely and easily.

littlebrain. Jupyter Notebook

asciify. Convert any image into ASCII Art.

RainCloudPlots. Code and tutorials to visualise your data that is both beautiful *and* statistically valid

PyLaTeX. A Python library for creating LaTeX files

ARFF-CNN. Automatic Facial Feature Removal (ARFF) to de-identify MR scans via Convolutional Neural Networks

CT_BET. Robust Brain Extraction Tool for CT Head Images

replacing-bash-scripting-with-python. Guide on using using python for administrative scripting

interfile. Python library for parsing interfile files

horos-bids-output. Horos plugin for BIDS output. Stanford Center for Reproducible Neuroscience coding sprint 2017.

vtkSnap. A simple, command-line image render and snaphot tool for NIFTI files

medinria-superproject. medInria super build.

matc3-algebra1. Revisione di Algebra1 di Matematica C3 in latex

freesurfer. Neuroimaging analysis and visualization suite

CSVAnalyzerPro. The last spreadsheet editor you will ever need

mathpix. Query the mathpix API to convert math images to LaTeX

pybraincompare. brain image comparison and visualization methods for python!

ANTsPy. A fast medical imaging analysis library in Python with algorithms for registration, segmentation, and more.

pydeface. defacing utility for MRI images

lesion-mapper. Automated mapping of T2 white matter hyperintensities using FSL

dicom2nifti. Python

quicksilver. Predictive Image Registration

SLSToolBox. Automated white matter lesion segmentation

cbrain. CBRAIN is a flexible Ruby on Rails framework for accessing and processing of large data on high-performance computing infrastructures.

DLTK. Deep Learning Toolkit for Medical Image Analysis

MAGeTbrain. Multiple Automatically Generated Templates brain segmentation algorithm

Cascade. Reproducible Segmentation of White Matter Changes

ANTs. Advanced Normalization Tools (ANTs)

antsRegistration-MAGeT. A reimplementation of MAGeTbrain using only ANTs tools.

marp. The site of classic Markdown presentation writer app

BRATS2013. Ah, yes, I see that you know your Judo well.

gcalcli. Google Calendar Command Line Interface

HCPpipelines. Processing pipelines for the HCP

epitome. scriptit modules for fmri analysis

scikit-fmm. scikit-fmm is a Python extension module which implements the fast marching method.

ecogtools. A collection of tools for analyzing electrocorticography data

pypreprocess. Preprocessing scripts for neuro imaging

deco. Python

pyinstaller. Freeze (package) Python programs into stand-alone executables

neuropower-web. sample size calculations for fMRI

psychopy. For running psychology and neuroscience experiments

nidata. Set of tools for downloading and accessing open-license neuroimaging data in a consistent format.

neural-style. Torch implementation of neural style algorithm

Automated-Lesion-Detection-Public. Matlab

dcm2niix. dcm2nii DICOM to NIfTI converter: compiled versions available from NITRC

STIR. Software for Tomographic Image Reconstruction

tracerkinetic. This R package implements compartmental models and linear approximations needed to perform kinetic analysis on dynamic medical images. The provided functions use the tissue time-activity curves, the input function and the frame times as input, and return the kinetic parameters and the estimated errors.

PETPVC. Partial Volume Correction in PET

mindboggle. Automated anatomical brain label/shape analysis software (+ website)

oasis. R package for OASIS lesion segmentation

mrtrix3. MRtrix3 provides a set of tools to perform various advanced diffusion MRI analyses, including constrained spherical deconvolution (CSD), probabilistic tractography, track-density imaging, and apparent fibre density

jasp-desktop. JASP aims to be a complete statistical package for both Bayesian and Frequentist statistical methods, that is easy to use and familiar to users of SPSS

antsCorticalThicknessExample. A dreaded sunny day / So I meet you at the cemetery gates / Keats and Yeats are on your side / While Wilde is on mine

tutorials. Jupyter Notebook