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HIFIS Software Spotlights

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PeTrack

PeTrack (Pedestrian Tracking) automatically extracts accurate pedestrian trajectories from video recordings (calibration, recognition, tracking). Individual codes enable personalized trajectories with static information of each participant. With a stereo camera also markerless tracking is possible.

Annotation
Calibration
Computer Vision
+ 17

C++
Python
CMake
+ 2

464

simplifyEnrichment

A new clustering algorithm, "binary cut", for clustering similarity matrices of functional terms is implemeted in this package. It also provides functions for visualizing, summarizing and comparing the clusterings.

Data analysis
Data Visualization
FAIR Data
+ 3

131

rGREAT

GREAT is a type of functional enrichment analysis directly performed on genomic regions. This package implements the GREAT algorithm, also it supports directly interacting with the GREAT web service (the online GREAT analysis). Both analysis can be viewed by a Shiny application.

Data analysis
Data Visualization
FAIR Data
+ 3

cola

Subgroup classification is a basic task in genomic data analysis. The cola package provides a general framework for subgroup classification by consensus partitioning.

Data analysis
Data Visualization
FAIR Data
+ 3

HTML
R
C++

Heat

Heat is a flexible and seamless open-source software for high performance data analytics and machine learning. It provides highly optimized algorithms and data structures for tensor computations using CPUs, GPUs and distributed cluster systems on top of MPI.

CPU
Data analysis
GPU
+ 4

Python
Jupyter Notebook
Shell
+ 1

SeisBench: A toolbox for machine learning in seismology

SeisBench is an open-source Python toolbox for machine learning in seismology. It brings together the whole machine learning model lifecycle: datasets and benchmarks, models and training pipelines, and efficient implementations for deploying the models in production.

Earth & Environment
GPU
Helmholtz AI
+ 4

Jupyter Notebook
Python

CellRank

CellRank is a computational framework to study cellular fate decisions based on various types of single-cell genomics data. CellRank scales to large cell numbers, is fully compatible with the scverse ecosystem, and is easy to use.

Data analysis
fate mapping
fate prediction
+ 7

Stable-Baselines3

Stable Baselines3 (SB3) is a set of reliable implementations of reinforcement learning algorithms in PyTorch.

Machine learning
robotics

Python
Shell
Makefile
+ 1

Julearn

Julearn aims to provide an easy-to-use but flexible interface to build predictive models with cross-validation (CV) consistent performance estimates. It poses as a solution accessible to domain experts without extensive ML training, enabling them to quickly fit and evaluate ML algorithms.

Machine learning
Neuroimaging
python

Python

DL4PuDe

DL4PuDe is an AI-based framework that automatically detects pushing behavior in crowd videos, leading to a better understanding of pushing dynamics. This knowledge is crucial for better crowd management strategies and better design of public places, making public places more comfortable and safer.

Artificial Intelligence
Crowd Management
Deep Learning
+ 3

Jupyter Notebook
Python
Cuda
+ 2

EuLerian Identification of ascending AirStreams - ELIAS 2.0

The ELIAS 2.0 software allows the identification of the footprints of rapidly ascending air streams in the atmosphere at substantially reduced computational costs compared to a conventional trajectory approach.

Atmospheric science
Earth & Environment
Machine learning
+ 1

Python
Jupyter Notebook

DataSAIL

DataSAIL is an open-source software tool that splits machine learning datasets while minimizing Information Leakage. It formulates the splitting of a dataset as a constrained minimization problem and optimizes the data split towards an objective function that accounts for information leakage.

Convex Optimization
data management
Data Splitting
+ 3

Python
Smarty