kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more
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Updated
Jun 7, 2024 - Rust
kmer based feature extraction tool for bioinformatics, metagenomics, AI/ML and more
MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data
a ruby function for kmer iterations and kmer graph preparation. estimates the kmers and gives occurrences as tab delimited
Very large scale k-mer counting and analysis on Apache Spark.
Nextflow pipeline to extract statistics from a genome about its sequence composition
K-mer counting algorithms and count-data utilities for the BioJulia framework
k-mer similarity analysis pipeline
MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data
Generate K-mer spectra to observe modalities of distributions
A naive implementation of a k-mer counter in Python, takes fasta files and k-mer length requests and outputs all k-mers of length k, their reverse complement, and their frequency within their respective sequence for each sequence in the file.
Counts the number of occurrences of each k-mer in a DNA string
fast and comprehensive k-mer counting package
A program to read sequences from fastq file and find out the frequency of all substrings with length k across all sequences in the file.
This is our implementation for D2 distance algorithm for k-mers.
Kmer Research in Python and R
A Streaming Algorithm for Estimating k-mer Counts with Optimal Space Usage in Parallel
Count canonical kmers with Boost C++ `boost::unordered_map` hash table
Count canonical kmers with Abseil C++ `absl::flat_hash_map`
Count canonical kmers with STL unordered_map
Count canonical kmers with Emil Ernerfeldt's emilib::HashMap
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