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The Top 23 Python Genomics Bioinformatics Pipeline Open Source Projects

Open source projects categorized as Python Genomics Bioinformatics Pipeline
Categories > Bioinformatics Pipeline
Categories > Science > Genomics
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33most recent commit 8 months 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 4 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
Open Cravat ⭐ 98
A modular annotation tool for genomic variants
most recent commit 6 months 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
Tiptoft ⭐ 20
Predict plasmids from uncorrected long read data
total releases 6most recent commit 4 years ago
Gff3toembl ⭐ 20
Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
most recent commit 5 years ago
Kgwasflow ⭐ 19
kGWASflow is a Snakemake workflow for performing k-mers-based GWAS.
most recent commit 6 months ago
Rnaseq Pipeline ⭐ 18
RNA-seq pipeline for raw sequence alignment and transcript/gene quantification.
most recent commit 3 months ago
Make_lastz_chains ⭐ 17
Portable solution to generate genome alignment chains using lastz
most recent commit 5 months ago
Plasmidtron ⭐ 16
Assembling the cause of phenotypes and genotypes from NGS data
most recent commit 4 years ago
Saffrontree ⭐ 14
SaffronTree: Reference free rapid phylogenetic tree construction from raw read data
most recent commit 4 years ago
Seroba ⭐ 14
k-mer based Pipeline to identify the Serotype from Illumina NGS reads
total releases 3most recent commit 9 months ago
Edgecase ⭐ 13
A framework for extracting telomeric reads from single-molecule sequencing experiments, describing their sequence variation and motifs, and for haplotype inference.
most recent commit a year ago
Region Plot ⭐ 12
A tool to plot significant regions of GWAS
most recent commit 4 years ago
Lodestone ⭐ 11
Mycobacterial pipeline
most recent commit 4 months ago
Riboraptor ⭐ 9
Tool for ribo-seq analysis
total releases 2most recent commit 3 years ago
Pygmql ⭐ 9
Python Library for data analysis based on GMQL
total releases 16most recent commit 2 years ago
Bioix ⭐ 9
PCA on Genotypes
most recent commit a year ago
Hybkit ⭐ 6
Toolkit for analysis of ".hyb" format nucleotide sequence data from chimeric RNA experiments.
most recent commit 5 months ago
The 8 Latest Releases In Python Genomics Bioinformatics Pipeline Open Source Projects
Oliver ⭐ 36
An opinionated Cromwell orchestration manager.
total releases 27latest release November 20, 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
Tiptoft ⭐ 20
Predict plasmids from uncorrected long read data
total releases 6latest release December 05, 2019most recent commit 4 years ago
Pygmql ⭐ 9
Python Library for data analysis based on GMQL
total releases 16latest release June 19, 2019most recent commit 2 years ago
Riboraptor ⭐ 9
Tool for ribo-seq analysis
total releases 2latest release April 27, 2018most recent commit 3 years ago
Circlator ⭐ 193
A tool to circularize genome assemblies
total releases 33latest release January 31, 2018most recent commit 8 months ago
Iva ⭐ 37
de novo virus assembler of Illumina paired reads
total releases 16latest release January 25, 2018most recent commit 3 years ago
Seroba ⭐ 14
k-mer based Pipeline to identify the Serotype from Illumina NGS reads
total releases 3latest release November 21, 2017most recent commit 9 months ago
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