Awesome Open Source
Search
Programming Languages
Languages
All Categories
Categories
About

The Top 23 Assembly Bioinformatics Open Source Projects

Open source projects categorized as Assembly Bioinformatics
Categories > Data Processing > Bioinformatics
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97most recent commit 4 months agopypi jcvi} Downloads
Nanopolish ⭐ 496
Signal-level algorithms for MinION data
most recent commit 8 months ago
Hifiasm ⭐ 443
Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
most recent commit 3 months ago
Megahit ⭐ 442
Ultra-fast and memory-efficient (meta-)genome assembler
most recent commit a year ago
Quast ⭐ 327
Genome assembly evaluation tool
most recent commit 7 months ago
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68most recent commit 5 months agopypi pyfastx} Downloads
Masurca ⭐ 207
most recent commit 7 months ago
Drep ⭐ 199
Rapid comparison and dereplication of genomes
dependent packages 1total releases 63most recent commit 7 months agopypi drep} Downloads
Soapdenovo2 ⭐ 197
Next generation sequencing reads de novo assembler.
most recent commit 5 months ago
Miniasm ⭐ 195
Ultrafast de novo assembly for long noisy reads (though having no consensus step)
most recent commit 4 years ago
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33most recent commit 8 months ago
Mag ⭐ 164
Assembly and binning of metagenomes
most recent commit 3 months ago
Indra ⭐ 154
INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.
dependent packages 7total releases 29most recent commit 3 months agopypi indra} Downloads
Pydna ⭐ 140
Clone with Python! Data structures for double stranded DNA & simulation of homologous recombination, Gibson assembly, cut & paste cloning.
dependent packages 7total releases 110most recent commit 4 months agopypi pydna} Downloads
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54most recent commit a year agopypi ariba} Downloads
Assemblytics ⭐ 124
Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference genome.
most recent commit 3 months ago
Genome_updater ⭐ 123
Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy
most recent commit 3 months ago
Redundans ⭐ 121
Redundans is a pipeline that assists an assembly of heterozygous/polymorphic genomes.
most recent commit 4 months ago
Bio ⭐ 97
Bioinformatics library for .NET
most recent commit 6 years ago
Platon ⭐ 93
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
total releases 10most recent commit 7 months ago
Assembly Stats ⭐ 92
Get assembly statistics from FASTA and FASTQ files
most recent commit a year ago
Sigprofilermatrixgenerator ⭐ 91
SigProfilerMatrixGenerator creates mutational matrices for all types of somatic mutations. It allows downsizing the generated mutations only to parts for the genome (e.g., exome or a custom BED file). The tool seamlessly integrates with other SigProfiler tools.
dependent packages 10total releases 102most recent commit 3 months agopypi SigProfilerMatrixGenerator} Downloads
Fermikit ⭐ 91
De novo assembly based variant calling pipeline for Illumina short reads
most recent commit 3 years ago
The 9 Most Depended On Assembly Bioinformatics Open Source Projects
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68latest release November 25, 2023most recent commit 5 months agopypi pyfastx} Downloads
Moclo ⭐ 10
Modular cloning simulation with the MoClo framework in Python
dependent packages 3total releases 14latest release November 08, 2021most recent commit 2 years agopypi moclo} Downloads
Drep ⭐ 199
Rapid comparison and dereplication of genomes
dependent packages 1total releases 63latest release September 15, 2023most recent commit 7 months agopypi drep} Downloads
Gfapy ⭐ 39
Gfapy: a flexible and extensible software library for handling sequence graphs in Python
dependent packages 1total releases 16latest release February 03, 2022most recent commit 2 years agopypi gfapy} Downloads
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54latest release September 07, 2020most recent commit a year agopypi ariba} Downloads
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97latest release August 30, 2023most recent commit 4 months agopypi jcvi} Downloads
The 10 Latest Releases In Assembly Bioinformatics Open Source Projects
Pyfastx ⭐ 211
a python package for fast random access to sequences from plain and gzipped FASTA/Q files
dependent packages 20total releases 68latest release November 25, 2023most recent commit 5 months agopypi pyfastx} Downloads
Aviary ⭐ 62
A hybrid assembly and MAG recovery pipeline (and more!)
total releases 19latest release November 20, 2023most recent commit 3 months ago
Teloclip ⭐ 26
A tool for the recovery of unassembled telomeres from soft-clipped read alignments.
total releases 3latest release November 06, 2023most recent commit 3 months ago
Drep ⭐ 199
Rapid comparison and dereplication of genomes
dependent packages 1total releases 63latest release September 15, 2023most recent commit 7 months agopypi drep} Downloads
Jcvi ⭐ 650
Python library to facilitate genome assembly, annotation, and comparative genomics
dependent packages 1total releases 97latest release August 30, 2023most recent commit 4 months agopypi jcvi} Downloads
Platon ⭐ 93
Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.
total releases 10latest release August 10, 2023most recent commit 7 months ago
Dentist ⭐ 44
Close assembly gaps using long-reads at high accuracy.
total releases 13latest release September 14, 2022most recent commit 10 months ago
Repp ⭐ 10
Repository-based plasmid design
total releases 2latest release June 05, 2022most recent commit 4 years ago
Popular Programming Languages Categories
Python
Javascript
Java
Typescript
C Plus Plus
Php
Golang
C
C Sharp
Shell
Categories
Privacy | About | Terms | Follow Us On Twitter

Downloads, Dependent Repos, Dependent Packages, Total Releases, Latest Releases data powered by Libraries.io.

Copyright 2018-2024 Awesome Open Source.  All rights reserved.