squigualiser-v0.6.3

• install via pip

python3.8 -m venv venv3
source venv3/bin/activate
pip install --upgrade pip
pip install squigualiser

• Or use the pre-compiled binary release for common Linux distributions

wget https://github.com/hiruna72/squigualiser/releases/download/v0.6.3/squigualiser-v0.6.3-linux-x86-64-binaries.tar.gz -O squigualiser.tar.gz
tar xf squigualiser.tar.gz
cd squigualiser
./squigualiser --help

• For a quick test run the following

wget https://github.com/hiruna72/squigualiser/releases/download/v0.3.0/sample_dataset.tar.gz
# or use curl
curl -L https://github.com/hiruna72/squigualiser/releases/download/v0.3.0/sample_dataset.tar.gz -o sample_dataset.tar.gz

tar xf sample_dataset.tar.gz
./squigualiser plot_pileup -f ref.fasta -s reads.blow5 -a eventalign.bam -o dir_out --region chr1:92,778,040-92,782,120 --tag_name "test_0"

• export PATH=[path_to_squigualiser_dir]:$PATH to execute squigualiser from any location.

What's Changed

• using readpaf locally by @hiruna72 in #63
• skip split reads and duplex reads

Full Changelog: v0.6.2...v0.6.3