kmer

Quickly search, compare, and analyze genomic and metagenomic data sets.

DNABERT: pre-trained Bidirectional Encoder Representations from Transformers model for DNA-language in genome

Inference of ploidy and heterozygosity structure using whole genome sequencing data

Accurate metagenomic profiling && Fast large-scale sequence/genome searching

De novo genome assembly and multisample variant calling

modular k-mer count matrix and Bloom filter construction for large read collections

Toolkit for k-mer with taxonomic information

Classify sequencing reads using MinHash.

Fast k-mer based tool for multi locus sequence typing (MLST)

Generate unique KMERs for every contig in a FASTA file

Predict plasmids from uncorrected long read data

Phase and visualize subgenomes of an allopolyploid or hybrid based on the repetitive kmers.

Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.

Count kmers with a more efficient (faster) hash table

k-mer similarity analysis pipeline

🎯 Generate DNA sequences with specified amino acid, codon, and k-mer frequencies

DNA kmer operations for nim

counts k-mers, written in rust

Ultrafast sequence typing and gene detection from NGS raw reads

fast and comprehensive k-mer counting package