Cloud-Native Omics Analysis Platform

From research question to analysis results

Find data, run analyses, and read reports. Start with built-in pipelines and extend them as your research grows.

Start an analysis Explore the product

RNA-seq analysis steps, illustrated

Data → analysis → reports → reuse

Follow the same path for your first run and your next study. Choose data, then review parameters and estimated Credits.

Find research data

Upload FASTQ files and sample details, or add public data to your analysis workspace.

Configure an analysis

Choose a pipeline for your question, match inputs, and review parameters.

Read progress and reports

Follow processing steps, then open reports and download result files.

Reuse with new samples

Keep the pipeline and parameters, choose new inputs, and run again.

Find research data

Upload FASTQ files and sample details, or add public data to your analysis workspace.

Configure an analysis

Choose a pipeline for your question, match inputs, and review parameters.

Read progress and reports

Follow processing steps, then open reports and download result files.

Reuse with new samples

Keep the pipeline and parameters, choose new inputs, and run again.

Agent-native analysis

Let the Agent search. Keep analysis in the platform.

Describe the research goal in natural language. The Agent can find workflows, data, runs and results; analysis setup and submission stay in GeniOmics.

This connection is read-only for now. Configure, submit, cancel and download through the existing platform pages; there is no second workflow to learn.

Intent

Describe the research goal, questions and expected outputs.

Find workflows and data

The Agent checks the workflows, data and inputs available to your organization.

See run progress

The Agent reads status, failure reasons and records you can check.

Return to the platform

When you need to configure, submit or download, continue in the existing pages.

Explain

Link explanations back to inputs, parameters, QC, reports and the manifest.

Start with what you know. Extend as you go.

Start with a built-in analysis, then organize tools, revise pipelines or bring your own code as your research develops.

Run a built-in analysis

Choose a method for your question, then select data and parameters. No canvas or Nextflow environment setup is required.

Choose an analysis

Use your data and public data

Upload samples and reference files, or find public research records. Verified files can be added to your analysis workspace.

Manage research data

Build a reusable pipeline

Organize runnable tool modules into analysis steps. Define the processing logic during design and select actual data when running.

Create a pipeline

Continue an existing Nextflow project

Import DSL2 from ZIP or Git, check dependencies and input requirements, then use the same run setup.

Import Nextflow

Six analysis types, chosen by scientific question

Explore expression, chromatin, variants, methylation and spatial transcriptomics. The app shows each analysis's input requirements and parameters.

View all

nf-core/rnaseq

RNA-seq

Expression quantification

Multiple aligners and quantification methods, with comprehensive QC and gene / transcript-level quantification.

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nf-core/chipseq

ChIP-seq

Protein-DNA interaction

Process protein-DNA interaction sequencing data through alignment, peak calling and quality assessment.

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nf-core/atacseq

ATAC-seq

Chromatin accessibility

For chromatin accessibility studies, detecting open chromatin regions and regulatory elements.

Learn more

nf-core/sarek

Sarek variant calling

germline / somatic

Germline and somatic variant analysis for WGS / WES data, with functional annotation.

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nf-core/methylseq

Methyl-seq

DNA methylation

Whole-genome methylation analysis for WGBS and RRBS data.

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nf-core/spatialvi

Spatial transcriptomics

10x Visium

10x Genomics Visium spatial transcriptomics analysis with Space Ranger and downstream steps.

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AI assistant

Let Copilot help with the next step

From research questions to run settings, get suggestions and action summaries while keeping control of key decisions.

Open Copilot

Find an entry point from a paper

Explore relevant data and analysis methods for your question, with sources you can follow.

Help configure an analysis

Use your data and pipeline context to fill settings, identify missing inputs, and review the run summary.

Understand progress and results

See what is happening, why a task is blocked, and discuss next research steps using generated reports.

Built on an open analysis ecosystem

Work with Nextflow, nf-core and MultiQC methods so analysis steps and their outputs remain understandable and reusable.

Nextflow

The leading workflow engine — reproducible runs across any cloud and HPC.

nf-core

A community-curated collection of rigorously validated best-practice pipelines.

MultiQC

Aggregates every QC result into one unified, interactive report.

Wave

Builds and caches container images on demand for consistent, faster startups.

Data, analyses and reports in one workspace

Start with your next analysis

Choose a built-in analysis, add data, and review the run settings. Bring an existing Nextflow project through the import path.

Start an analysis