Velocyto is a library for the analysis of RNA velocity.

A software package for analyzing snapshots of developmental processes in scRNA-seq data.

pyunicorn (Unified Complex Network and RecurreNce analysis toolbox) is a fully object-oriented Python package for the advanced analysis and modeling of complex networks.

Qualimap 2 is a platform-independent application written in Java and R that provides both a Graphical User Inteface (GUI) and a command-line interface to facilitate the quality control of alignment sequencing data and its derivatives like feature counts.

a reactive workflow framework and programming DSL that ease writing computational pipelines with complex data.

It is designed around the idea that the Linux platform is the lingua franca of data science. Linux provides many simple but powerful command-line and scripting tools that, when chained together, facilitate complex data manipulations.

Nextflow extends this approach, adding the ability to define complex program interactions and a high-level parallel computational environment based on the dataflow programming model.

A Nextflow script is defined by composing many different processes. Each process can be written in any scripting language that can be executed by the Linux platform (BASH, Perl, Ruby, Python, etc), to which is added the ability to coordinate and synchronize the processes execution by simply specifying their inputs and outputs.

pyunicorn (Unified Complex Network and RecurreNce analysis toolbox) is a fully object-oriented Python package for the advanced analysis and modeling of complex networks.

A tool to conduct recurrence analysis in a massively parallel manner using the OpenCL framework.