Get Started¶

Installation¶

Anaconda Installation¶

Installing on Linux https://docs.anaconda.com/anaconda/install/linux/

Guppy Installation¶

sudo apt-get update
sudo apt-get install wget lsb-release
export PLATFORM=$(lsb_release -cs)
wget -O- https://mirror.oxfordnanoportal.com/apt/ont-repo.pub | sudo apt-key add -
echo "deb http://mirror.oxfordnanoportal.com/apt ${PLATFORM}-stable non-free" | sudo tee /etc/apt/sources.list.d/nanoporetech.sources.list
sudo apt-get update
apt-get install ont-guppy[-cpu]

Porechop Installation¶

/opt/anaconda3/bin/conda create -n porechop python=3.7
source activate /opt/anaconda3/envs/porechop
/opt/anaconda3/bin/conda install -c bioconda porechop
source /opt/anaconda3/bin/deactivate

NanoStat Installation¶

/opt/anaconda3/bin/conda create -n nanostat python=3.7
source activate /opt/anaconda3/envs/nanostat
/opt/anaconda3/bin/conda install -c bioconda nanostat
source /opt/anaconda3/bin/deactivate

NanoFilt Installation¶

/opt/anaconda3/bin/conda create -n nanofilt python=3.7
source activate /opt/anaconda3/envs/nanofilt
/opt/anaconda3/bin/conda install -c bioconda nanofilt
source /opt/anaconda3/bin/deactivate

Canu Installation¶

/opt/anaconda3/bin/conda create -n canu python=3.7
source activate /opt/anaconda3/envs/canu
/opt/anaconda3/bin/conda install -c bioconda canu
source /opt/anaconda3/bin/deactivate

Flye Installation¶

/opt/anaconda3/bin/conda create -n flye python=2.7
source activate /opt/anaconda3/envs/flye
/opt/anaconda3/bin/conda install -c bioconda flye
source /opt/anaconda3/bin/deactivate

Unicycler Installation¶

/opt/anaconda3/bin/conda create -n unicycler python=3.7
source activate /opt/anaconda3/envs/unicylcer
/opt/anaconda3/bin/conda install -c bioconda unicycler
source /opt/anaconda3/bin/deactivate