Ecosyste.ms: Repos
An open API service providing repository metadata for many open source software ecosystems.
GitHub topics: metagenomic-pipeline
cafferychen777/MicrobiomeStat-Turtorial-Professional-Version
MicrobiomeStat Tutorial Repository: This is a comprehensive resource for learning how to use the MicrobiomeStat package. It provides a step-by-step guide to effectively analyze complex microbiome data.
Size: 176 MB - Last synced: 8 days ago - Pushed: 8 days ago - Stars: 2 - Forks: 2
jimmlucas/wgs-metasociomic
WGS- Metasociomic- analysing bacterial social interactions in metagenomes of longitudinally collected samples of human microbiomes
Language: Nextflow - Size: 6.79 MB - Last synced: 10 days ago - Pushed: 11 days ago - Stars: 0 - Forks: 0
NerdVerse2024/Milk_metagenomics
Milk Metagenomics Analysis of Cow Milk Samples across Global sites Using Mothur
Size: 147 KB - Last synced: 13 days ago - Pushed: 13 days ago - Stars: 0 - Forks: 0
LaboratorioBioinformatica/MAGset
MAGset is a tool to analyze and compare MAGs of known species
Language: Java - Size: 13.9 MB - Last synced: 17 days ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0
EBI-Metagenomics/pipeline-v5
This repository contains all CWL descriptions of the MGnify pipeline version 5.0.
Language: HTML - Size: 376 MB - Last synced: about 1 month ago - Pushed: 9 months ago - Stars: 20 - Forks: 18
Nirmal2310/MetaSutra
This pipeline takes the raw metagenomic WGS reads as an input, assemble them, separate the contigs in MAGs, taxonomically classify the MAGs and quantify the ARGs in the MAGs. The pipeline is built using R Shiny and people can run end to end analysis by doing few clicks on the screen.
Language: HTML - Size: 32.9 MB - Last synced: about 1 month ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0
Cloud-SPAN/nercMtGn-bashAutomation
Automating NERC metagenomics analysis tasks with bash scripts - quarto website style
Language: CSS - Size: 20 MB - Last synced: about 1 month ago - Pushed: about 1 month ago - Stars: 0 - Forks: 0
Brochado-Kith/microbiome_analysis
The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.
Language: R - Size: 1.34 MB - Last synced: 2 months ago - Pushed: 2 months ago - Stars: 3 - Forks: 0
frubino/mgkit
MGKit: Metagenomics Framework
Language: Python - Size: 30.1 MB - Last synced: about 1 month ago - Pushed: over 1 year ago - Stars: 13 - Forks: 3
uel3/UnO_nf
NextFlow Metagenomic Pipeline for UnO: Generates bins from co-assembly of multiple sets of mNGS reads
Language: Nextflow - Size: 301 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0
ac1513/MAGqual
MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG standards
Language: Python - Size: 97.7 KB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 4 - Forks: 0
koszullab/metaTOR
Metagenomic binning based on Hi-C data
Language: Python - Size: 127 MB - Last synced: 19 days ago - Pushed: about 2 months ago - Stars: 20 - Forks: 10
balazshorvathreal/MegaVir
MegaVir is a bioinformatic pipeline for virome characterization and genome assembly.
Language: R - Size: 92.8 KB - Last synced: 5 months ago - Pushed: 5 months ago - Stars: 1 - Forks: 0
hermidalc/dragonfish
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
Language: Python - Size: 9.24 MB - Last synced: 6 months ago - Pushed: 9 months ago - Stars: 0 - Forks: 0
new-atlantis-labs/Metagenomics
🐋 The Living Oceans Metagenome Taxanomic Profiling tool (beta) is a metagenomic pipeine built to work on your local ocean
Language: Jupyter Notebook - Size: 47.1 MB - Last synced: 4 months ago - Pushed: over 1 year ago - Stars: 7 - Forks: 2
treangenlab/komb
KOMB is a tool for fast identification of unitigs of interest in metagenomes. KOMB introduces the concept of a Hybrid Unitig Graph (an extension to compacted de Bruijn graphs) and relies on k-core and K-truss decomposition algorithms.
Language: C++ - Size: 242 MB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 3 - Forks: 0
Ahmed-A-Mohamed/metaGEENOME
metaGEENOME is a 16S rRNA metagenomic analysis tool that encompasses nearly all steps of downstream analysis.
Language: R - Size: 13.6 MB - Last synced: about 2 months ago - Pushed: about 2 months ago - Stars: 0 - Forks: 0
huyvanvnese/Metagenomics-Analysis-on-NIG-Supercomputer
Simple Script for Metagenomics Analysis on NIG Supercomputer (National Institute of Genetics)
Size: 15.6 KB - Last synced: 8 months ago - Pushed: 8 months ago - Stars: 0 - Forks: 0
sablokgaurav/metapanran
MetaPanRan bring togthers Roary, PEPPAN, Pirate and PanROO for the comparative analysis of metagenomes and performs indepth analysis on evolutionary scales
Language: R - Size: 123 KB - Last synced: 7 months ago - Pushed: 7 months ago - Stars: 1 - Forks: 0
Nimauric/Mapler
A metagenome assembly and evaluation pipeline, focused on hi-fi long reads, but with support for lo-fi long reads and hybrid assemblies
Language: Python - Size: 236 KB - Last synced: 5 months ago - Pushed: 7 months ago - Stars: 1 - Forks: 0
Finesim97/MetaErgInstallHelper
A few scripts to help with the installation of MetaErg, the contig/bin annotation pipeline
Language: Shell - Size: 31.3 KB - Last synced: about 1 year ago - Pushed: over 4 years ago - Stars: 7 - Forks: 3
VictorCalderon/megazor-metagenomics
A pipeline for metagenomic analysis
Language: Shell - Size: 3.91 KB - Last synced: 10 months ago - Pushed: 10 months ago - Stars: 0 - Forks: 0
avishekdutta14/iMAGine
iMAGine - In silico Metagenomics Pipeline
Language: Python - Size: 113 KB - Last synced: 4 months ago - Pushed: 4 months ago - Stars: 2 - Forks: 2
karamveerverma37/Silva_output_merger
Silva OTU count table merger
Language: Perl - Size: 22.5 KB - Last synced: about 1 year ago - Pushed: over 1 year ago - Stars: 0 - Forks: 0
zaidissa/MetaRon
Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.
Language: Python - Size: 1.63 MB - Last synced: 29 days ago - Pushed: about 2 years ago - Stars: 6 - Forks: 2
bioinfonupeb/redemicro-miliane-nutri
EXPOSIÇÃO AGUDA AO CHUMBO E SUA RELAÇÃO COM ALTERAÇÕES NO STATUS REDOX E DISBIOSE INTESTINAL EM RATOS
Language: Jupyter Notebook - Size: 24.8 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0
bioinfonupeb/redemicro-ana-flavia-nutri
Metagenomic analysis of the project: "PROGRAMAÇÃO METABÓLICA INDUZIDA PELA SUPERLACTAÇÃO E SEUS EFEITOS NA ATIVAÇÃO DO INFLAMASSOMA NLRP3 E EXPRESSÃO DO MIR-155 EM MODELO EXPERIMENTAL DE RESISTÊNCIA À INSULINA"
Language: Jupyter Notebook - Size: 187 MB - Last synced: 3 months ago - Pushed: 3 months ago - Stars: 0 - Forks: 0
lauralwd/Azolla_genus_metagenome
This project aims do describe and explore the metagenomes of fern species of the genus Azolla.
Language: Python - Size: 10.9 MB - Last synced: about 1 year ago - Pushed: almost 2 years ago - Stars: 1 - Forks: 0
rcs333/CLOMP
:horse: CLinically Okay Metagenomic Pipeline :horse:
Language: Python - Size: 311 KB - Last synced: about 1 month ago - Pushed: over 4 years ago - Stars: 6 - Forks: 3
bioinfonupeb/microbiota_da_mulher_lbbm
Projeto de análise metagenômica e metabolômica da microbiota de mulheres no climatério - LBBM UFOP
Language: HTML - Size: 63.1 MB - Last synced: about 1 year ago - Pushed: almost 3 years ago - Stars: 0 - Forks: 0
hivlab/quantify-virome
quantify-virome: identify and quantify viruses from metagenomic shotgun sequences
Language: Python - Size: 9.02 MB - Last synced: about 1 year ago - Pushed: almost 4 years ago - Stars: 3 - Forks: 1
