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The Top 23 Genomics Bioinformatics Pipeline Open Source Projects

Open source projects categorized as Genomics Bioinformatics Pipeline
Categories > Bioinformatics Pipeline
Categories > Science > Genomics
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
Gcp For Bioinformatics ⭐ 178
GCP for Bioinformatics Researchers
most recent commit 3 months 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
Toga ⭐ 120
TOGA (Tool to infer Orthologs from Genome Alignments): implements a novel paradigm to infer orthologous genes. TOGA integrates gene annotation, inferring orthologs and classifying genes as intact or lost.
most recent commit 3 months ago
V Pipe ⭐ 119
V-pipe is a pipeline designed for analysing NGS data of short viral genomes
most recent commit 4 months ago
Open Cravat ⭐ 98
A modular annotation tool for genomic variants
most recent commit 6 months ago
Czid Web ⭐ 75
Infectious Disease Sequencing Platform
most recent commit 3 months ago
Awesome Structural Bioinformatics ⭐ 54
Structural Bioinformatics is awesome. Throw your textbook in the garbage, light the garbage can on fire, and blend the ashes into your cold brew almond milk latte and read this.
most recent commit a year ago
Phigaro ⭐ 43
Phigaro is a scalable command-line tool for predicting phages and prophages
total releases 37most recent commit 4 months ago
Bystro ⭐ 40
Bystro genetic analysis (annotation, filtering, statistics)
most recent commit a month ago
Assembly_improvement ⭐ 39
Improve the quality of a denovo assembly by scaffolding and gap filling
most recent commit 4 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
Socru ⭐ 23
Order and orientation of complete bacterial genomes
most recent commit 4 months ago
Gff3toembl ⭐ 20
Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
most recent commit 5 years ago
Tiptoft ⭐ 20
Predict plasmids from uncorrected long read data
total releases 6most recent commit 4 years ago
Kgwasflow ⭐ 19
kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.
most recent commit 7 months ago
Rnaseq Pipeline ⭐ 18
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
most recent commit 3 months ago
The 2 Most Depended On Genomics Bioinformatics Pipeline Open Source Projects
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54latest release September 07, 2020most recent commit a year agopypi ariba} Downloads
Hicstuff ⭐ 17
Simple library/pipeline to generate and handle Hi-C data.
dependent packages 1total releases 128latest release September 06, 2023most recent commit 3 years agopypi hicstuff} Downloads
The 10 Latest Releases In Genomics Bioinformatics Pipeline Open Source Projects
Hicstuff ⭐ 17
Simple library/pipeline to generate and handle Hi-C data.
dependent packages 1total releases 128latest release September 06, 2023most recent commit 3 years agopypi hicstuff} Downloads
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
Phigaro ⭐ 43
Phigaro is a scalable command-line tool for predicting phages and prophages
total releases 37latest release October 13, 2020most recent commit 4 months ago
Ariba ⭐ 135
Antimicrobial Resistance Identification By Assembly
dependent packages 1total releases 54latest release September 07, 2020most recent commit a year agopypi ariba} Downloads
Tiptoft ⭐ 20
Predict plasmids from uncorrected long read data
total releases 6latest release December 05, 2019most recent commit 4 years ago
Bio Tradis ⭐ 15
A set of tools to analyse the output from TraDIS analyses
total releases 14latest release December 04, 2019most recent commit 9 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
Pygmql ⭐ 9
Python Library for data analysis based on GMQL
total releases 16latest release June 19, 2019most recent commit 2 years ago
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