maskAlignedReads

map Pacific Biosciences reads to reference DNA sequences

Install

All systems
curl cmd.cat/maskAlignedReads.sh
Debian Debian
apt-get install pbalign
Ubuntu
apt-get install pbalign
Windows (WSL2)
sudo apt-get update sudo apt-get install pbalign
Raspbian
apt-get install pbalign
Dockerfile
dockerfile.run/maskAlignedReads

pbalign

map Pacific Biosciences reads to reference DNA sequences

pbalign aligns PacBio reads to reference sequences, filters aligned reads according to user-specific filtering criteria, and converts the output to either the SAM format or PacBio Compare HDF5 (e.g., .cmp.h5) format. This package is part of the SMRTAnalysis suite.