ARTIC tools

a set of tools for working with the ARTIC pipeline

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Overview

This collection of tools is being worked on and more utility is due to be added. For now, we have:

• download primer schemes and reference sequences
• primer scheme validation
• alignment softmasking
• vcf filtering

Read the docs for more info and checkout the ARTIC pipeline.

Install

conda

conda install -c bioconda artic-tools

source

You need CMake, Boost, HTSlib and a C++17 compiler. To download and install artic-tools run:

git clone --recursive https://github.com/will-rowe/artic-tools.git
mkdir artic-tools/build
cd artic-tools/build
cmake ..
make -j4
make test
../bin/artic-tools -h