A workflow that performs an end to end metagenomics analysis, including quality controls, taxonomic profiling, microbial diversity and abundance as well functional analysis to identify gene families and metabolic network activity.
This metagenomic workflow uses clade-specific marker genes for an accurate and fast microbiome and functional profiling analysis. All the steps in the pipeline are based on open source reference bioinformatics tools, considered as standards for the analysis of metagenomics data.
KneadData: Quality controls on metagenomic sequencing data
MetaPhlAn: Profile composition of microbial communities
Phyloseq: Analyze and graphically display phylogenetic data
Vegan: Analyze diversity, community ordination and dissimilarity
Krona: Interactive exploration of relative abundances
HUMAnN: Profile microbial gene families and pathways
Lefse: Differential abundance analysis
ANCOM-BC: Analysis of compositions of microbiomes
MaAsLin: Multivariable associations between microbiome features
All results are integrated in a single interactive report with tables and plots for each step performed by the pipeline.
Average per sample
Average per study
BatchX offers a serverless infrastructure for running bioinformatics analyses as a fully managed service. With the click of a button, off-load all your complex processing requirements to the cloud in a cost-effective, secure, and scalable way.
Our metagenomics pipeline gives you the flexibility to customize it to suit your needs. It's super easy to change any parameter and re-run the analysis with the click of a button.
Our no code environment gives you the freedom you need to run the metagenomics pipeline with zero coding required. Share your results with collaborators in a secure and private manner.
Get instant assistance for any issue from our extended and experienced bioinformatics team through dedicated slack channels, emails, or conference calls.
BatchX allows us to carry out the metagenomic analyses we need quickly and efficiently. The platform’s flexibility and the availability of the team allowed us to improve and adapt the workflows to meet our needs. As a rookie in bionformatics, BatchX is a source of inspiration, showing me how far bioinformatic analyses can go.
BatchX is super easy to use. Any bioinformatician who deals with complex pipelines including 16S will appreciate the efficiency – import scripts once and never worry about recurring errors. We also enjoyed per job cost updates.
TLDR: BatchX includes pipelines for classic 16S Metagenomics analysis but has also designed solutions for less conventional and more challenging scenarios. Read in this blog how BatchX can help you analyze 16S non-....