extract-long-sequences.py

in-memory DNA sequence kmer counting, filtering & graph traversal

Install

All systems
curl cmd.cat/extract-long-sequences.py.sh
Debian Debian
apt-get install khmer
Ubuntu
apt-get install khmer
image/svg+xml Kali Linux
apt-get install khmer
Windows (WSL2)
sudo apt-get update sudo apt-get install khmer
Dockerfile
dockerfile.run/extract-long-sequences.py

khmer

in-memory DNA sequence kmer counting, filtering & graph traversal

khmer is a library and suite of command line tools for working with DNA sequence. It is primarily aimed at short-read sequencing data such as that produced by the Illumina platform. khmer takes a k-mer-centric approach to sequence analysis, hence the name.