schultzm

entrez_direct_tut

Tutorial on using E-utilities

SliceAudio

Slice up audio files in batch to generate one shot samples

Budgitree

alv

A console-based alignment viewer

havic

Detect Hepatitis A Virus Infection Clusters

pandoo

pbzip2_perl_bash_file_alpine

Minimal alpine image with bash and lbzip2

anvil-course

Course demo code and other hand-out materials for our Anvil: Web apps with nothing but Python course

ARBanker

Download metadata from the CDC and FDA AR Isolate Bank

ariba

Antimicrobial Resistance Identification By Assembly

biopython

Official git repository for Biopython (converted from CVS)

CRIS

Find CRISPR binding sites

ete

Python package for building, comparing, annotating, manipulating and visualising trees. It provides a comprehensive API and a collection of command line tools, including utilities to work with the NCBI taxonomy tree.

fastv

An ultra-fast tool for identification of SARS-CoV-2 and other microbes from sequencing data. This tool can be used to detect viral infectious diseases, like COVID-19.

geometree

Compute distances between phylogenetic trees

GFFtoFASTA

Convert GFF format files to multi-FASTA

groovy

Apache Groovy: A powerful multi-faceted programming language for the JVM platform

IS_mapper

IS mapping software

ngmaster

In silico multi-antigen sequence typing for Neisseria gonorrhoeae (NG-MAST)

p2xkit

Primer-to-x kit, where x is 'isPCR', 'qPCR'

RM-seq

RM-seq is a bioinformatics tool for assessing resistance mutations from complex or pooled resistant bacterial population using barcoded amplicons sequencing data

snp-dists

Pairwise SNP distance matrix from a FASTA sequence alignment

SpartanGPUCourse

Using GPGPUs on Spartan