GitHub
showermodel
A Python package for modelling cosmic-ray showers, their light production and their detection
pfb-toolkit
A python package to build portable Energy Management and Information Systems (EMIS) application in buildings.
scikit-psl
Scoring Lists – a probabilistic & incremental extension to Scoring Systems
transformers-interpret
Model explainability that works seamlessly with 🤗 transformers. Explain your transformers model in just 2 lines of code.
yuview
The Free and Open Source Cross Platform YUV Viewer with an advanced analytics toolset
msprime
Simulate genealogical trees and genomic sequence data using population genetic models
@stdlib/stats-incr-kurtosis
Compute a corrected sample excess kurtosis incrementally.
devito
DSL and compiler framework for automated finite-differences and stencil computation
filtersam
Tools to filter SAM/BAM files by percent identity and percent of matched sequence
https://github.com/sintel-dev/orion
Unsupervised time series anomaly detection library
torchcam
Class activation maps for your PyTorch models (CAM, Grad-CAM, Grad-CAM++, Smooth Grad-CAM++, Score-CAM, SS-CAM, IS-CAM, XGrad-CAM, Layer-CAM)
crisprseq
A pipeline for the analysis of CRISPR edited data. It allows the evaluation of the quality of gene editing experiments using targeted next generation sequencing (NGS) data (`targeted`) as well as the discovery of important genes from knock-out or activation CRISPR-Cas9 screens using CRISPR pooled DNA (`screening`).
virelay
ViRelAy is a visualization tool for the analysis of data as generated by CoRelAy.
torch-mlir
The Torch-MLIR project aims to provide first class support from the PyTorch ecosystem to the MLIR ecosystem.
pypolar
Python modules for polarization changes using Jones or Mueller calculus
power-grid-model-io
Conversion tool for various grid data formats to power-grid-model
maca-python
MACA: Marker-based automatic cell-type annotation for single cell expression data
@digitallinguistics/transliterate
A small JavaScript library for transliterating strings between different orthographies
https://github.com/hackingmaterials/robocrystallographer
Automatic generation of crystal structure descriptions.
grand-challenge.org
A platform for end-to-end development of machine learning solutions in biomedical imaging
ratinabox
A python package for simulating movement and spatial cell types (e.g. place cells, grid cells) in continuous environments.
manuscript
This repository implements an automated system to write our collaborative manuscript, while tracking changes and contributions.
RecursiveArrayTools
Tools for easily handling objects like arrays of arrays and deeper nestings in scientific machine learning (SciML) and other applications
database
Tools for accessing and maintaining the iTEM model & historical databases
mendeleev
A python package for accessing various properties of elements, ions and isotopes in the periodic table of elements.
https://github.com/bigbio/sdrf-pipelines
`sdrf-pipelines` is the official SDRF file validator and converts SDRF to pipeline configuration files
nl-causal-representations
This is the code for the paper Jacobian-based Causal Discovery with Nonlinear ICA, demonstrating how identifiable representations (particularly, with Nonlinear ICA) can be used to extract the causal graph from an underlying structural equation model (SEM).
phys2bids
Python3 library to format physiological files in BIDS. At the moment, it supports Acqknowledge and Labchart. BrainHack participants, check the issues with the BrainHack labels!
r-raster-vector-geospatial
Introduction to Geospatial Raster and Vector Data with R
ultrametric_matrix_tools
Toolbox that provides functions and data structures to generate and handle ultrametric matrices.
pie-torch
Fast Python implementations of Poisson image editing, using Pytorch and NumPy.
abagen
A toolbox for working with Allen Human Brain Atlas microarray expression data
lim-sample
Implementation of SAMPLE (Spectral Analysis for Modal Parameter Linear Estimate)
GenomicSuperSignature
Interpretation of RNAseq experiments through robust, efficient comparison to public databases
ram-scb
RAM-SCB is a unique code that combines a kinetic model of ring current plasma with a three dimensional force-balanced model of the terrestrial magnetic field to simulate Earth's inner magnetosphere.
clip2imgur
A simple macOS command line tool for uploading your screenshots from clipboard to Imgur
deepgravity
a PyTorch implementation of the paper "Deep Gravity: enhancing mobility flows generation with deep neural networks and geographic information"
TensorToolbox
Julia package for tensors as multidimensional arrays, with functionalty within Tucker format, Kruskal (CP) format, Hierarchical Tucker format and Tensor Train format.
KomaMRI
Koma is a Pulseq-compatible framework to efficiently simulate Magnetic Resonance Imaging (MRI) acquisitions. The main focus of this package is to simulate general scenarios that could arise in pulse sequence development.
changepoint
A place for the development version of the changepoint package on CRAN.
Bedtoolsr
Bedtoolsr: An R package for genomic data analysis and manipulation - Published in JOSS (2019)
bamtofastq
Converts bam or cram files to fastq format and does quality control.
microscope
Python library for control of microscope devices, supporting hardware triggers and distribution of devices over the network for performance and flexibility.