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49-60 of 293

COPASI

COPASI is an open source software for simulation and analysis of biochemical networks and their dynamics. It provides simulations using ODEs, SDEs, or Gillespie's stochastic simulation algorithm, with optional discrete events. COPASI provides several analyses, optimization, and parameter estimation.

Dynamics
optimization
Parameter estimation
+ 3

C++
Java
Fortran
+ 17

2500

COVID-19 Integrated Surveillance Data in Italy

COVID-19 integrated surveillance data provided by the Italian National Institute of Health and processed via UnrollingAverages.jl to deconvolve the weekly simple moving averages.

Clinical Data
Computational Epidemiology
COVID-19
+ 16

Julia
TeX
Python

Cross-perspective Topic Modeling

An application that uses cross-perspective topic modeling to extract topics and opinions from text and provides insight into how they change over time.

Text analysis & natural language processing

Python
Jupyter Notebook
Shell

CrowdED

CrowdED is a two-staged statistical guideline for optimal crowdsourcing experimental design in order to a-priori estimate optimal workers and tasks' assignment to obtain maximum accuracy on all tasks.

Citizen Science
Crowdsourcing
Data Simulation

Python
R
Dockerfile

cudawrappers

The cudawrappers library is a C++ wrapper for the Nvidia C libraries such as the CUDA driver, NVRTC, and cuFFT.

accelerators
CUDA
GPU

C++
CMake
Python
+ 1

cvasl

This library allows exploration and analyses of neuroimaging datsets. The software was developed to allow implementation of multiple large data harmonization and machine learning algorithms over neuroradiology datasets. The core algorithms are implemented in Python.

Jupyter Notebook
Python
Dockerfile
+ 2

cwltool

The reference implementation of the Common Workflow Language standards

CommonWL
CWL
SciWorkflows

Python
Common Workflow Language
Shell
+ 4

Data Processing (What Works When for Whom)

Data processing scripts for the project What Works When for Whom

Jupyter Notebook
Python
Shell

dCacheFS

Python file-system interface for dCache storages.

Data
Inter-operability & linked data
Optimized data handling
+ 1

Python
Jupyter Notebook

DeepRank

Deep learning framework for data mining protein-protein interactions using CNN

Big data
Machine learning
Optimized data handling

Python
R
C
+ 2

DeepRank2

DeepRank2 is an open-source deep learning framework for data mining of protein-protein interfaces or single-residue missense variants. This package is an improved and unified version of three previously developed packages: DeepRank, DeepRank-GNN and DeepRank-Mut.

Cancer vaccine
Convolutional Neural Network
Deep Learning Framework
+ 5

Python
Jupyter Notebook
TeX
+ 1

DeepRank GNN

DeepRank-GNN is the graph neural network of our DeepRank package. DeepRank GNN allows to train graph neural networks to classify protein-protein interface

Python