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.
conda install -c bioconda artic-tools
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