Software Updates

lorax

A long-read analysis toolbox for cancer genomics.

BCFtools

a set of utilities that manipulate variant calls in the Variant Call Format (VCF) and its binary counterpart BCF. All commands work transparently with both VCFs and BCFs, both uncompressed and BGZF-compressed.

SeqKit

a cross-platform ultrafast comprehensive toolkit for FASTA/Q processing.

smoove

structural variant calling and genotyping with existing tools, but, smoothly.

RoseTTAFold

a program that provides an accurate prediction of protein structures and interactions using a 3-track network.

SAMtools

(Sequence Alignment/Map) a generic format for storing large nucleotide sequence alignments that provides various utilities for manipulating alignments, including sorting, merging, indexing and generating alignments in a per-position format.

poretools

a toolkit for working with nanopore sequencing data from Oxford Nanopore

AlphaFold

an implementation of the inference pipeline of AlphaFold v2.0 using a completely new model that was entered in CASP14.

MDAnalysis

an object-oriented Python library to analyze trajectories from molecular dynamics (MD) simulations in many popular formats. It can write most of these formats, too, together with atom selections suitable for visualization or native analysis tools.

AlphaFold

an implementation of the inference pipeline of AlphaFold v2.0 using a completely new model that was entered in CASP14.

FreeSurfer

a software package for the analysis and visualization of structural and functional neuroimaging data from cross-sectional or longitudinal studies.