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The Top 23 Genome Assembly Open Source Projects

Open source projects categorized as Genome Assembly
Categories > Genome Assembly
Nanopolish ⭐ 496
Signal-level algorithms for MinION data
most recent commit a year ago
Megahit ⭐ 442
Ultra-fast and memory-efficient (meta-)genome assembler
most recent commit a year ago
Nextdenovo ⭐ 306
Fast and accurate de novo assembler for long reads
most recent commit 8 months ago
Ragtag ⭐ 286
Tools for fast and flexible genome assembly scaffolding and improvement
total releases 7most recent commit a year ago
Ltr_retriever ⭐ 167
LTR_retriever is a highly accurate and sensitive program for identification of LTR retrotransposons; The LTR Assembly Index (LAI) is also included in this package.
most recent commit 5 months ago
Blobtools ⭐ 136
Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
most recent commit 2 years ago
Viral Ngs ⭐ 129
Viral genomics analysis pipelines
most recent commit 4 years ago
Redundans ⭐ 121
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
most recent commit 6 months ago
Mitoz ⭐ 105
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
most recent commit 5 months ago
Mccortex ⭐ 86
De novo genome assembly and multisample variant calling
most recent commit 5 years ago
Pangraph ⭐ 72
A bioinformatic toolkit to align genome assemblies into pangenome graphs
most recent commit 5 months ago
Links ⭐ 69
⛓Long Interval Nucleotide K-mer Scaffolder
most recent commit 6 months ago
Ggcat ⭐ 60
Compacted and colored de Bruijn graph construction and querying
most recent commit 5 months ago
Hinge ⭐ 57
Software accompanying "HINGE: Long-Read Assembly Achieves Optimal Repeat Resolution"
most recent commit 5 years ago
Tigmint ⭐ 53
⛓ Correct misassemblies using linked AND long reads
total releases 1most recent commit 9 months ago
Helen ⭐ 52
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
total releases 19most recent commit 4 years ago
Mpgap ⭐ 51
Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
most recent commit 4 months ago
Coursera Data Structures And Algorithms Specialization ⭐ 51
Master Algorithmic Programming Techniques. Learn algorithms through programming and advance your software engineering or data science career
most recent commit 4 years ago
Gnnome Assembly ⭐ 49
Learning to untangle genome assembly with graph neural networks.
most recent commit 2 years ago
Bacass ⭐ 47
Simple bacterial assembly and annotation pipeline
most recent commit 8 months ago
Gala ⭐ 45
Long-reads Gap-free Chromosome-scale Assembler
most recent commit 2 years ago
Dentist ⭐ 44
Close assembly gaps using long-reads at high accuracy.
total releases 13most recent commit a year ago
Allhic ⭐ 41
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
total releases 8most recent commit 3 years ago
The 10 Latest Releases In Genome Assembly Open Source Projects
Teloclip ⭐ 26
A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
total releases 3latest release November 06, 2023most recent commit 5 months ago
Dentist ⭐ 44
Close assembly gaps using long-reads at high accuracy.
total releases 13latest release September 14, 2022most recent commit a year ago
Pyfastg ⭐ 5
A minimal Python library for parsing SPAdes FASTG files
total releases 2latest release June 27, 2022most recent commit 9 months ago
Ragtag ⭐ 286
Tools for fast and flexible genome assembly scaffolding and improvement
total releases 7latest release October 31, 2021most recent commit a year ago
Allhic ⭐ 41
Genome scaffolding based on HiC data in heterozygous and high ploidy genomes
total releases 8latest release May 24, 2021most recent commit 3 years ago
Camsa ⭐ 15
CAMSA: a tool for Comparative Analysis and Merging of Scaffold Assemblies
total releases 36latest release April 13, 2020most recent commit 4 years ago
Helen ⭐ 52
H.E.L.E.N. (Homopolymer Encoded Long-read Error-corrector for Nanopore)
total releases 19latest release March 23, 2020most recent commit 4 years ago
Instagraal ⭐ 33
Large genome reassembly based on Hi-C data, continuation of GRAAL
total releases 6latest release March 21, 2019most recent commit a year ago
Tigmint ⭐ 53
⛓ Correct misassemblies using linked AND long reads
total releases 1latest release August 30, 2018most recent commit 9 months ago
Downpore ⭐ 30
Suite of tools for use in genome assembly and consensus. Work in progress.
total releases 1latest release January 18, 2018most recent commit 5 years ago
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