in- and out-of-core kmer counting and utilities


All systems
curl cmd.cat/existDB.sh
Debian Debian
apt-get install meryl
apt-get install meryl
image/svg+xml Kali Linux
apt-get install meryl
Windows (WSL2)
sudo apt-get update sudo apt-get install meryl
apt-get install meryl


in- and out-of-core kmer counting and utilities

meryl computes the kmer content of genomic sequences. Kmer content is represented as a list of kmers and the number of times each occurs in the input sequences. The kmer can be restricted to only the forward kmer, only the reverse kmer, or the canonical kmer (lexicographically smaller of the forward and reverse kmer at each location). Meryl can report the histogram of counts, the list of kmers and their counts, or can perform mathematical and set operations on the processed data files. This package is part of the Kmer suite.


single molecule sequence assembler for genomes

Canu is a fork of the Celera Assembler, designed for high-noise single-molecule sequencing (such as the PacBio RS II or Oxford Nanopore MinION). Canu is a hierarchical assembly pipeline which runs in four steps: * Detect overlaps in high-noise sequences using MHAP * Generate corrected sequence consensus * Trim corrected sequences * Assemble trimmed corrected sequences