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autocgmlst

Automatically generate, analyze, and optimize a core genome multilocus sequence typing scheme

campylobacter-jejuni-cgmlst

campyontology

cbw

Backup for CBW-IDGE 2017 data

cgfprediction

cgmlst_analyze

cgmlst_autocreate

Bash script for automatic creation of cgmlst schemes.

chewbbaca

BSR-Based Allele Calling Algorithm

cohortid

comersatz

Construct synthetic metagenomes from sequencing read data

cookbook

A Cookbook of Short Solutions to Various Bioinformatics Problems

crowbar

csv2xlsx

Wraps CSV files in a MS Excel workbook, with each CSV as a worksheet.

diagflu

Scritps for automating annotations, BLAST runs and BLAST output parsing

disseqt-redux

Refactoring DISSEQT

ecoli_serotyping

In silico prediction of E. coli serotype

enabrowsertools

A collection of scripts to assist in the retrieval of data from the ENA Browser

endless-sky

Space exploration, trading, and combat game.

epiquant

Shiny Web applications

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.

extract_aligned_region

Extract the regions of a reference genome mapped by sequencing reads

fast_dist_gene

A reimplementation of ape::dist.gene() using Rcpp

feht

Predictive marker discovery for groups; binary data, genomic data (single nucleotide variants), arbitrary character data.

fngr

fngr-validate

fsac

fairly simple allele caller

gcfilter

Filters a FASTQ file by GC content

gogetem

Get nucleotide data from EMBL and amino acid data from UniProt for Gene Ontology terms

grapetree_cluster

Cluster GrapeTree's output into clusters

gtclust