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The Top 23 Genomics Next Generation Sequencing Open Source Projects

Open source projects categorized as Genomics Next Generation Sequencing
Categories > Science > Genomics
Categories > Next Generation Sequencing
Jvarkit ⭐ 440
Java utilities for Bioinformatics
most recent commit 6 months ago
Sarek ⭐ 299
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
most recent commit 3 months ago
Roary ⭐ 219
Rapid large-scale prokaryote pan genome analysis
total releases 83most recent commit 2 years ago
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33most recent commit 8 months ago
Artemis ⭐ 191
Artemis is a free genome viewer and annotation tool that allows visualization of sequence features and the results of analyses within the context of the sequence, and its six-frame translation
most recent commit a year ago
Snp Sites ⭐ 173
Finds SNP sites from a multi-FASTA alignment file
most recent commit 3 years ago
Ngless ⭐ 141
NGLess: NGS with less work
total releases 5most recent commit a year ago
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54most recent commit a year agopypi ariba} Downloads
Gubbins ⭐ 133
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins
most recent commit 5 months ago
Sarek ⭐ 126
Detect germline or somatic variants from normal or tumour/normal whole-genome or targeted sequencing
most recent commit 4 years ago
Assembly Stats ⭐ 92
Get assembly statistics from FASTA and FASTQ files
most recent commit a year ago
Czid Web ⭐ 75
Infectious Disease Sequencing Platform
most recent commit 3 months ago
Fq ⭐ 54
Command line utility for manipulating Illumina-generated FASTQ files.
total releases 3most recent commit 5 months ago
Htstream ⭐ 48
A high throughput sequence read toolset using a streaming approach facilitated by Linux pipes
most recent commit 10 months ago
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21most recent commit 2 years agopypi pyfastaq} Downloads
Assembly_improvement ⭐ 39
Improve the quality of a denovo assembly by scaffolding and gap filling
most recent commit 4 years ago
Pathogen Informatics Training ⭐ 38
most recent commit 3 years ago
Iva ⭐ 37
de novo virus assembler of Illumina paired reads
total releases 16most recent commit 3 years ago
Oliver ⭐ 36
An opinionated Cromwell orchestration manager.
total releases 27most recent commit a year ago
Advntr ⭐ 35
A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data
most recent commit 3 months ago
Workflows ⭐ 28
Bioinformatics workflows developed for and used on the St. Jude Cloud project.
most recent commit 3 months ago
Wdldoc ⭐ 26
Create WDL documentation using Markdown.
total releases 14most recent commit a year ago
Gff3toembl ⭐ 20
Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
most recent commit 5 years ago
The 2 Most Depended On Genomics Next Generation Sequencing Open Source Projects
Fastaq ⭐ 45
Python3 scripts to manipulate FASTA and FASTQ files
dependent packages 7total releases 21latest release February 19, 2018most recent commit 2 years agopypi pyfastaq} Downloads
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54latest release September 07, 2020most recent commit a year agopypi ariba} Downloads
The 10 Latest Releases In Genomics Next Generation Sequencing Open Source Projects
Sandy ⭐ 14
A straightforward and complete next-generation sequencing read simulator
total releases 9latest release September 19, 2023most recent commit 5 months ago
Ngless ⭐ 141
NGLess: NGS with less work
total releases 5latest release September 19, 2022most recent commit a year ago
Oliver ⭐ 36
An opinionated Cromwell orchestration manager.
total releases 27latest release November 20, 2021most recent commit a year ago
Wdldoc ⭐ 26
Create WDL documentation using Markdown.
total releases 14latest release September 10, 2021most recent commit a year ago
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54latest release September 07, 2020most recent commit a year agopypi ariba} Downloads
Bio Tradis ⭐ 15
A set of tools to analyse the output from TraDIS analyses
total releases 14latest release December 04, 2019most recent commit 8 months ago
Albatradis ⭐ 7
Comparative TraDIS analysis
total releases 2latest release December 03, 2019most recent commit a year ago
Roary ⭐ 219
Rapid large-scale prokaryote pan genome analysis
total releases 83latest release November 06, 2019most recent commit 2 years ago
Fq ⭐ 54
Command line utility for manipulating Illumina-generated FASTQ files.
total releases 3latest release April 22, 2018most recent commit 5 months ago
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