Microbiome Profiling

Streamline Microbiome Profiling with Cosmos-Hub

Cosmos-Hub allows researchers to import their raw sequencing data directly into the platform and run a number of available bioinformatics pipelines for microbiome analysis.

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Enterprise Bioinformatics Pipeline Management Platform

Deploy your pipelines once. Let your organization run them, without losing quality control.

Cosmos-Hub 2.0 lets bioinformatics teams scale their standardized analysis frameworks, reduce ad hoc support requests, and centralize pipeline execution in a secure, version-controlled environment.

 
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The problems most Bioinformatics teams know well.

”Half my week is re-running analyses for wet lab colleagues who could run them themselves if the tools weren't so hard to use.”

”Every team runs slightly different versions of the same pipeline. We have no single source of truth.”

”When a senior bioinformatician leaves, we lose months of institutional knowledge about how analyses were set up.”

Cosmos-Hub 2.0 brings analytical capabilities and organizational workflows together in one centralized environment.

Microbiome Profiling

Streamline Microbiome Profiling with Cosmos-Hub

Cosmos-Hub allows researchers to import their raw sequencing data directly into the platform and run a number of available bioinformatics pipelines for microbiome analysis.
Microbiome Profiling
 

In just a few easy steps, users can run industry-leading bioinformatics pipelines for a wide range of different data types:

  • Import data from their computer, from Illumina BaseSpace, directly from NCBI SRA or via Command Line Import (CLI).
  • Select the type of data they’d like to import: Shotgun, 16S or ITS
  • Select from 1 of 9 different host genomes to run automated host read depletion
  • Upload your study metadata
  • Choose your pipeline and primers
 

In just a few easy steps, users can run industry-leading bioinformatics pipelines for a wide range of different data types:

  • Import data from their computer, from Illumina BaseSpace, directly from NCBI SRA or via Command Line Import (CLI).
  • Select the type of data they’d like to import: Shotgun, 16S or ITS
  • Select from 1 of 9 different host genomes to run automated host read depletion
  • Upload your study metadata
  • Choose your pipeline and primers
Microbiome Profiling

MULTIPLY YOUR TEAM'S IMPACT

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1. Deploy standardized frameworks at scale

Build your analysis pipelines and visualization frameworks once, then publish them as organizational resources. Any scientist in the organization can run them with the same version, the same quality, and the same reproducibility, every time.

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2. Eliminate repetitive analysis requests

When wet lab biologists have access to verified workflows they can run themselves, the queue of routine requests collapses. Stop fielding "can you re-run this with different parameters" and start focusing on work that genuinely needs your expertise.

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3. Centralize execution in a secure, compliant environment

Pipeline execution, results, outputs, provenance and reasoning: all centralized, all tracked, all auditable. Enterprise-ready security with SSO, MFA, GDPR-aligned permissions, Attribute-based access control (ABAC) and full provenance tracking. Built for pharmaceutical and regulated research environments.

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4. Free your team for the science that needs them

Advanced methods development. Complex multi-omics integration. Study design and quality review. Strategic scientific support. That is what a bioinformatics team should be doing. Cosmos-Hub 2.0 makes it possible.

WHAT CHANGES WITH COSMOS-HUB 2.0?
 
 
Traditional Omics Analyses With Cosmos-Hub 2.0
Studies are one-time events. Findings stored in files and reports that nobody revisits. Every study becomes a documented, searchable, reusable organizational asset.
Data reuse requires tracking down the original analyst and hoping the code still runs. Historical data is discoverable and reusable without manual effort or archaeological digs through shared drives.
Bioinformatics is a bottleneck. Scientists wait. Discovery cycle times suffer. Scientists analyse independently using verified frameworks. Bottlenecks dissolve. Cycle times shorten.
Institutional knowledge lives in people's heads and leaves with them. Every analysis is centralized, documented, and retained regardless of team changes or restructures.
Analytical quality varies by team, tool, and individual. Results are not always comparable. All analyses run on standardized, version-controlled frameworks. Quality is consistent and auditable across the organization.

 

How it works

Build one, scale everywhere.

Step 1: Build your analysis framework in Cosmos-Hub 2.0

Sersion-control every update and define exactly which parameters end users can configure and which are locked to your specification.

 

Step 2: Publish to your organization

Make approved frameworks available to any team or research center with controlled access and granular permissions. No unsafe sharing. No version drift.

Step 3: Non-coders run verified analyses independently

Wet lab colleagues run your workflows through an intuitive no-code interface, getting consistent and reproducible results without needing your involvement.

Step 4: You focus on advanced science

Review outputs when it matters, develop new methods, and provide the strategic scientific support that only you can deliver.

Key feature for wet labs

every update tracked, every version accessible, nothing overwritten silently

deploy to any team, research center, or business unit with access controls intact

define what non-coders can adjust and lock what they cannot, without rebuilding anything

AWS-backed, SSO, MFA, GDPR-aligned permissions, built for regulated research

Onboard your existing scripts and pipelines into the platform without a full rebuild

Multivariate statistics, supervised classification (Random Forest, Logistic Regression, SVM, Gradient Boosting), MaAsLin3, metabolomics workflows and more

TRUSTED GLOBALLY BY RESEARCH SCIENTISTS

1,000+

users worldwide

30+

countries

600K

samples profiled

170k

analyses completed

“The biggest difference Cosmos-Hub has made for me is the ease of data handling and versatility of tools available, including LEfSe and MaAsLin3, which significantly reduces the time required to do the analysis on my own.”

Nezar AI-Hebshi, PhD, Temple University

Cosmos-Hub agnostically supports data generated by all sequencing technologies
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SEE COSMOS-HUB 2.0 IN ACTION, BUILT FOR YOUR WORKFLOW

 Book a personalised 30-minute demo and see exactly how your team would use Cosmos-Hub 2.0 for your specific omics data. No commitment. No setup required.

Frequently Asked Questions