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Shotgun metagenomic sequencing data analysis bioinformatics software tools

Metagenomics is defined as the study of the metagenome, which is total genomic DNA from environmental samples. Metagenomics has long been one of the major research tools in microbial ecology since the term was first used in 1998 (Handelsman et al., 1998). Metagenomics has become…

Metagenomic sequencing analysis steps

Metagenomic sequencing analysis workflow

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Metagenomic sequencing analysis workflow schema

Experts in Metagenomic sequencing analysis

They share and annotate bioinformatics tools

Most recent bioinformatics tools

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FROGS
Desktop

FROGS Find, Rapidly, OTUs with Galaxy Solution

Allows analysis of large sets of amplicon sequences and yields abundance tables…

Allows analysis of large sets of amplicon sequences and yields abundance tables of Operational Taxonomic Units (OTUs) with their taxonomic affiliation. FROGS is a set of 13 tools, designed for…

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SIDR
Desktop

SIDR Sequence Identification with Decision tRees

Classifies sequences using a decision tree. SIDR consists in a supervised…

Classifies sequences using a decision tree. SIDR consists in a supervised machine learning method allowing identification of target and contaminant DNA in de novo genome assembly projects. An…

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ASAR
Desktop

ASAR Advanced metagenomic Sequence Analysis in R

Allows users to select, aggregate, and visualize metagenomic data. ASAR enables…

Allows users to select, aggregate, and visualize metagenomic data. ASAR enables researchers to develop a meaningful view of their data. The software consists of a main panel with seven tabs and a…

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C-SWAT
Desktop

C-SWAT

Offers a library dealing with Saccharomyces cerevisiae open reading frame…

Offers a library dealing with Saccharomyces cerevisiae open reading frame (ORFs). C-SWAT is a software able to perform a genome engineering at 3’ ends of ORFs with the aim of assisting users in…

Most popular analytical software

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Bowtie
Desktop

Bowtie

A short read aligner that aligns short DNA sequences (reads) to the human…

A short read aligner that aligns short DNA sequences (reads) to the human genome at a rate of over 25 million 35-bp reads per hour. Bowtie indexes the genome with a Burrows-Wheeler index to keep its…

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BWA
Desktop

BWA Burrows-Wheeler Aligner

Maps low-divergent sequences against a large reference genome, such as the…

Maps low-divergent sequences against a large reference genome, such as the human genome. BWA consists of three algorithms: BWA-backtrack, BWA-SW and BWA-MEM. The first algorithm is designed for…

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IDBA-UD
Desktop

IDBA-UD

A iterative De Bruijn Graph De Novo Assembler for Short Reads Sequencing data…

A iterative De Bruijn Graph De Novo Assembler for Short Reads Sequencing data with Highly Uneven Sequencing Depth.

BLAST
Web

BLAST Basic Local Alignment Search Tool

Allows to align query sequences against those present in a selected target…

Allows to align query sequences against those present in a selected target database. BLAST is a suite of programs, provided by NCBI, which can be used to quickly search a sequence database for…

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