GitHub topics: kmer-frequency-count
nf-core/kmermaid
k-mer similarity analysis pipeline
Language: Nextflow - Size: 12.8 MB - Last synced at: 10 days ago - Pushed at: 10 days ago - Stars: 21 - Forks: 13
sanger-tol/sequencecomposition
Nextflow DSL2 pipeline to extract statistics from a genome about its sequence composition
Language: Groovy - Size: 2.89 MB - Last synced at: 4 days ago - Pushed at: 4 days ago - Stars: 2 - Forks: 2
slowikj/seqR
fast and comprehensive k-mer counting package
Language: C++ - Size: 1.72 MB - Last synced at: about 1 month ago - Pushed at: over 3 years ago - Stars: 18 - Forks: 1
BioJulia/KmerAnalysis.jl
K-mer counting algorithms and count-data utilities for the BioJulia framework
Language: Julia - Size: 5.4 MB - Last synced at: 7 days ago - Pushed at: about 2 years ago - Stars: 11 - Forks: 5
jtnystrom/Discount
Very large scale k-mer counting and analysis on Apache Spark.
Language: Scala - Size: 10.6 MB - Last synced at: 16 days ago - Pushed at: about 1 year ago - Stars: 18 - Forks: 2
raw-lab/mercat2
MerCat2: python code for versatile k-mer counting and diversity estimation for database independent property analysis for metaome data
Language: HTML - Size: 105 MB - Last synced at: 8 days ago - Pushed at: about 2 months ago - Stars: 11 - Forks: 1
suchapalaver/fastas2kmers
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.
Language: Python - Size: 17.6 KB - Last synced at: about 1 month ago - Pushed at: about 3 years ago - Stars: 9 - Forks: 0
ShawnMOlichwier/KmerResearch
Kmer Research in Python and R
Language: R - Size: 17.7 MB - Last synced at: over 1 year ago - Pushed at: about 6 years ago - Stars: 1 - Forks: 2
alexpreynolds/kmer-counter-abseil
Count canonical kmers with Abseil C++ `absl::flat_hash_map`
Language: C++ - Size: 8.79 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 1 - Forks: 0
rejoyc-cs/k_mer_in_DNA
Counts the number of occurrences of each k-mer in a DNA string
Language: Python - Size: 1.95 KB - Last synced at: over 1 year ago - Pushed at: over 3 years ago - Stars: 0 - Forks: 0
urmilkadakia/ParallelKmerEstimate
A Streaming Algorithm for Estimating k-mer Counts with Optimal Space Usage in Parallel
Language: C++ - Size: 629 KB - Last synced at: over 1 year ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
pnnl/mercat
MerCat: python code for versatile k-mer counting and diversity estimation for database independent property analysis for meta -ome data
Language: Python - Size: 2.7 MB - Last synced at: 29 days ago - Pushed at: over 2 years ago - Stars: 18 - Forks: 13
Selvalakshmi27/Kspectra
Generate K-mer spectra to observe modalities of distributions
Language: Python - Size: 1.49 MB - Last synced at: almost 2 years ago - Pushed at: over 2 years ago - Stars: 1 - Forks: 0
turkdogan/kmer-counter
Counts k-kmers and sorts top "k" kmer by occurrence.
Language: C++ - Size: 199 KB - Last synced at: 4 months ago - Pushed at: about 8 years ago - Stars: 0 - Forks: 0
bissim/bgp-d2
This is our implementation for D2 distance algorithm for k-mers.
Language: Java - Size: 2.06 MB - Last synced at: 2 months ago - Pushed at: almost 6 years ago - Stars: 0 - Forks: 0
alexpreynolds/kmer-counter-boost
Count canonical kmers with Boost C++ `boost::unordered_map` hash table
Language: C++ - Size: 7.81 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
alexpreynolds/kmer-counter-emilib
Count canonical kmers with Emil Ernerfeldt's emilib::HashMap
Language: C++ - Size: 10.7 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
alexpreynolds/kmer-counter-ska
Count canonical kmers with Malte Skarupke's bytell_hash_map hash table
Language: C++ - Size: 23.4 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
alexpreynolds/kmer-counter-sparse
Count canonical kmers with Google sparse_hash_map
Language: C++ - Size: 5.86 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0
alexpreynolds/kmer-counter-unordmap
Count canonical kmers with STL unordered_map
Language: C++ - Size: 15.6 KB - Last synced at: 3 months ago - Pushed at: over 6 years ago - Stars: 0 - Forks: 0