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2018-bioinfosummer-scrnaseq

astral

Accurate Species TRee ALgorithm

awesome-single-cell

List of software packages for single-cell data analysis, including RNA-seq, ATAC-seq, etc.

common_scripts

my bin directory

dpird-mk

Repo for DPIRD's Uptake Project

filtlong

quality filtering tool for long reads

grape-tile-amplicon-scheme

Tiled amplicon primer scheme for simultaneous detection of eleven grapevine viruses.

interartic

InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..

nanopore-nf

Nanopore pipeline for DPIRD - uses Nextflow

nextstrain-build-for-grapevine-red-blotch-virus

pan-genome-visualization

Visualization of the pan-genome output by panX

pathopore

PathoPore - Longer Sequences and NextFlow Faster Analysis

phydyn

PhyDyn: Epidemiological modelling in BEAST

phylonetworks.jl

A Julia package for statistical inference, data manipulation and visualization of phylogenetic networks

rampart

Read Assignment, Mapping, and Phylogenetic Analysis in Real Time

rnaseq-nf

A proof of concept of RNAseq pipeline

snakemake-wrappers

This is the development home of the Snakemake wrapper repository, see

supermatrix

scripts to add new proteins to alignment using hmms

taming-the-beast-2017-london-lectures

Lecture slides of Taming the BEAST 2017 in London, United Kingdom

training-collection

Collection of bioinformatics training materials

trinityrnaseq

Trinity RNA-Seq de novo transcriptome assembly

trycycler

A tool for generating consensus long-read assemblies for bacterial genomes

zika-pipeline

The Zika bioinformatics pipeline