To reproduce some results from "CAMISIM: simulating metagenomes and microbial communities". Authors: Simon Konnov, Ciara Makievskaya, Ruslan Gumerov
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Updated
May 24, 2019 - Jupyter Notebook
To reproduce some results from "CAMISIM: simulating metagenomes and microbial communities". Authors: Simon Konnov, Ciara Makievskaya, Ruslan Gumerov
Application of Recurrent Neural Network to Metagenomic
This project aims do describe and explore the metagenomes of fern species of the genus Azolla.
XGBoost implementation for bacteria family identification
PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
Arche: a functional-optimized annotator for microbial meta(genomes)
Code associated with the Ley Lab animal gut metagenome assembly project
CWL implementation for DEMIC
HumanMetagenomeDB: a public repository of curated and standardized metadata for human metagenomes
Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
bacterial metagenomes and pangenome graphs from both illumina and long reads
Raw sequence metagenomic reads pre-processing: trimming, QC, and host contamination
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.
A few scripts to help with the installation of MetaErg, the contig/bin annotation pipeline
This is the codebase for Faucet, described in our manuscript: https://academic.oup.com/bioinformatics/article/34/1/147/4004871, by Roye Rozov, Gil Goldshlager, Eran Halperin, and Ron Shamir
Track, Analyze, Visualize: Unravel Your Microbiome's Temporal Pattern with MicrobiomeStat
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