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The Top 23 Python Metagenomics Open Source Projects

Open source projects categorized as Python Metagenomics
Categories > Metagenomics
Strainflye ⭐ 7
Pipeline for analyzing (rare) mutations in metagenome-assembled genomes
most recent commit 8 months ago
Nanometa_live ⭐ 7
A streamlined workflow and GUI for real-time species identification and pathogen characterization via nanopore sequencing data. Engineered for precision, speed, and user-friendliness, with offline functionality post-initialization.
most recent commit 3 months ago
Pydamage ⭐ 7
Damage parameter estimation for ancient DNA
total releases 14most recent commit 8 months ago
Repbin ⭐ 7
[AAAI'22] RepBin: Constraint-Based Graph Representation Learning for Metagenomic Binning
most recent commit 2 years ago
Boldigger Commandline ⭐ 7
BOLDigger as a commandline tool
most recent commit 8 months ago
Mglex ⭐ 6
MGLEX – A Python Package for Probabilistic Modeling and Binning of Metagenomes
total releases 3most recent commit 5 years ago
Lavalampplot ⭐ 6
instructions, python and R code for generating lava lamp plots of kmer coverage
most recent commit 9 months ago
Environmental_metagenomics ⭐ 6
A quick workflow to get researchers started with the bioinformatic pipeline used in the Environmental Metagenomics program.
most recent commit a year ago
Localhgt ⭐ 6
Detect complete HGT event rapidly and accurately from complex metagenomics data
most recent commit 3 months ago
Reneo ⭐ 5
🦠🧬 Unraveling Viral Genomes from Metagenomes
most recent commit 6 months ago
Metasequencing ⭐ 5
A metagenomics pipeline using the CGAT framework.
most recent commit 4 years ago
Metagenomics ⭐ 5
🐋 The Living Oceans Metagenome Taxanomic Profiling tool (beta) is a metagenomic pipeine built to work on your local ocean
most recent commit a year ago
Metagenomics ⭐ 5
Snakemake workflow for functional analysis of metagenomic WGS read data.
most recent commit 2 years ago
Nbis Meta ⭐ 5
A snakemake workflow for metagenomic projects
most recent commit 3 years ago
Deepmicrobes ⭐ 5
DeepMicrobes: a deep learning architecture for taxonomic classification of shotgun metagenomic reads
most recent commit 5 years ago
Sars Cov2_analysis ⭐ 5
Documentation for analyzing SARS-Cov2 samples.
most recent commit 4 years ago
Grimer ⭐ 5
GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and metadata with focus on contamination detection.
most recent commit a year ago
Flint ⭐ 5
Main repository of the Flint project for Spark and Amazon EMR.
most recent commit 4 years ago
Metashot ⭐ 5
MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina sequences, offering an automated procedure covering all the analysis steps from raw data management to taxonomic profiling. It is designed to analyze both DNA-Seq and RNA-Seq data.
most recent commit 4 years ago
Mgnify Web ⭐ 5
Parent repo for MGnify's (EMBL-EBI's metagenomics platform) API and web client. Designed for local development.
most recent commit 3 months ago
Melon ⭐ 5
Melon: metagenomic long-read-based taxonomic identification and quantification
most recent commit 4 months ago
Plasmidpicker ⭐ 5
Software to identify plasmid sequence data from metagenome using logistic regression and Minhash
most recent commit 5 years ago
Metaron ⭐ 5
Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.
total releases 4most recent commit 2 years ago
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