A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
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Updated
Aug 15, 2023 - Python
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
Analysis of input alphabet sequential data
Analysing and Visualizing (EDA) and Cluster data Modeling for metagenomics and metatranscriptomics data to different microbial ecosystems
A repository as a Supplementary Methods of Moulana et al., 2019
A code in R to make a Metagenomic analysis from data obtained from a taxonomical classification from KRAKEN 2
This repository contains scripts used to process the metagenomic and 16S rRNA gene amplicon data obtained from biological soil crusts in at the Avdat site in the Negev Desert, Israel. The results and discussion of the analysis are published in the manuscript "Distribution of mixotrophy and desiccation survival mechanisms across microbial genomes…
utility scripts for metagenomics, RNAseq etc. reads processing.
The software estimate the percentage of the coverage of reads for different samples provided as MAGs.
Super fast script for classifying metagenomic 16S/18S sequences
Docker image for MGKit
This repository contains code for generating an interactive sunburst graphic for metagenomic analysis.
XGBoost implementation for bacteria family identification
MAGset is a tool to analyze and compare MAGs of known species
Fast sequence vectorization for metagenomics analysis. Converts input sequences into k-mer coverage vectors, fast! Read more detail in our paperhttps://doi.org/10.1093/bioinformatics/btaa441
Repository for report for study project «Human Microbiome Research» by Blastim
MetaFast is a novel metagenomic analysis tool employing efficient containment search techniques and heuristics for read mapping to achieve significant speedup while maintaining high accuracy. This positions MetaFast as an efficient solution, optimally balancing speed and precision in metagenomic analysis.
Common bioinformatic tools in C/C++
Pipeline for amplicon sequencing projects. OTUs can be build with various methods (usearch,vsearch,uparse,swarm) and classified using the RDP Classifier and SINA. Final output is a BIOM file for downstream processing (Phyloseq/R)
Tools to handle metagenomic data manipulation
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