a Python package that provides infrastructure to process data from high-throughput sequencing assays.

(Model Based Analysis of ChIP-Seq data) a novel algorithm for identifying transcript factor binding sites.

a DNA and protein sequence alignment software package that searches for matching sequence patterns or words, called k-tuples.

PyMC3 is a Python package for Bayesian statistical modeling and Probabilistic Machine Learning focusing on advanced Markov chain Monte Carlo (MCMC) and variational inference (VI) algorithms. Its flexibility and extensibility make it applicable to a large suite of problems.

An efficient and versatile approach for short-read alignment and variant detection in high-throughput sequenced genomes.

an open source software library for high performance numerical computation. Its flexible architecture allows easy deployment of computation across a variety of platforms (CPUs, GPUs, TPUs), and from desktops to clusters of servers to mobile and edge devices. Originally developed by researchers and engineers from the Google Brain team within Google’s AI organization, it comes with strong support for machine learning and deep learning, and the flexible numerical computation core is used across many other scientific domains.

(St. Petersburg genome assembler) a genome assembly algorithm designed for single-cell and multi-cell bacterial data sets.