Metagenomic binning based on Hi-C data
metagenomics hi-c metagenome-assembly louvain-community-detection metagenomic-pipeline proximity-ligation-assay metahic
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- Python
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metagenomic-pipeline
Here are 43 public repositories matching this topic...
This repository contains all CWL descriptions of the MGnify pipeline version 5.0.
workflow metagenomics common-workflow-language cwl metagenomic-analysis metagenomic-classification metagenomic-data amplicon-pipeline cwl-workflow cwl-descriptions metagenomic-pipeline wgs-analysis mgnify
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- HTML
A Nextflow pipeline designed to classify, align and assemble nanopore metagenomic reads.
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- Nextflow
MGKit: Metagenomics Framework
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- Python
MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG standards
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- Python
A metagenome assembly and evaluation pipeline, focused on hi-fi long reads, but with support for lo-fi long reads and hybrid assemblies
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- Jupyter Notebook
🐋 The Living Oceans Metagenome Taxanomic Profiling tool (beta) is a metagenomic pipeine built to work on your local ocean
python bioinformatics ocean metagenomics python3 bioinformatics-pipeline plankton metagenomic-analysis gitcoin metagenomic-pipeline gitcoin-grants desci resci
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- Jupyter Notebook
Metagenomic opeRon Prediction pipeline. MetaRon presents the first pipeline for the prediction of metagenomic operons without any functional or experimental data.
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- Python
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.
metagenomics metagenomic-analysis anomaly-detection metagenomic-pipeline k-core-decomposition short-read-sequencing
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- C++
🐴 CLinically Okay Metagenomic Pipeline 🐴
taxonomy sequencing next-generation-sequencing metagenomics metagenomic-classification metagenomic-data ngs-pipeline metagenomic-pipeline
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- Python
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.
visualization analysis metagenomics data-analysis microbiome omics 16s metagenomes metagenomic-analysis microbiome-analysis omics-data-integration microbiome-data 16s-rrna microbiome-workflow metagenomic-pipeline omics-data microbiome-analysis-pipelines 16s-seq omics-data-analysis
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🗂️Parse multiple Kraken2 reports into CSV files on 6 taxonomical levels
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- Python
A few scripts to help with the installation of MetaErg, the contig/bin annotation pipeline
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- Shell
MetaBolt: Lightning fast & automated metagenomic pipeline powered by Nextflow
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- Nextflow
quantify-virome: identify and quantify viruses from metagenomic shotgun sequences
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- Python
A flexible metagenomic pipeline combining read-based, assemblies and MAGs with downstream analysis
pipeline metagenomics customizable microbial-communities wgs whole-genome-sequencing metagenomic-analysis metagenomic-pipeline
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- Python
The following codes are focused on microbiome analysis, alpha, beta and relative abundance differences.
diversity rstudio beta beta-diversity microbiome 16s microbiome-analysis phyloseq alpha-diversity microbiome-workflow metagenomic-pipeline shinny
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- R
Metagenomic analysis of the project: "Metabolic programmimg for resilience small litter size preserves gut microbiota diversity and SCFA output despite high-sucrose diet"
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- Jupyter Notebook
Projeto de análise metagenômica e metabolômica da microbiota de mulheres no climatério - LBBM UFOP
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- HTML
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