Software Updates

scvi-tools

(single-cell variational inference tools) is a package for end-to-end analysis of single-cell omics data.

Python

a general-purpose, interpreted, object oriented, high-level dynamic programming language that emphasizes code readability. Its syntax allows programmers to express concepts in fewer lines of code than in C++ or Java, thus allowing programmers to work more quickly and integrate their systems more effectively.

jq

is a lightweight and flexible command-line JSON processor.

scvi-tools

(single-cell variational inference tools) is a package for end-to-end analysis of single-cell omics data.

bcbio-nextgen

provides best-practice pipelines for automated analysis of high throughput sequencing data with the goal of being quantifiable, analyzable, scalable and reproducible. The development process is fully open and sustained by contributors from multiple institutions. Bioinformaticians, biologists and the general public should be able to run these tools on inputs ranging from research materials to clinical samples to personal genomes.

R

a free software environment for statistical computing and graphics.

dask

Dask is a flexible library for parallel computing in Python.

TractSeg

tool for fast and accurate white matter bundle segmentation from Diffusion MRI. It can create bundle segmentations, segmentations of the endregions of bundles and Tract Orientation Maps (TOMs). Moreover, it can do tracking on the TOMs creating bundle-specific tractogram and do Tractometry analysis on those.

H2O

H2O is a scalable machine learning and predictive analytics platform.