Analysis Workbench

There are 3 analysis workflows available in Panomics, each offering appropriate analytical methods for the modality that's being analyzed.

Workflows share a common structure, so the UI always stays familiar and intuitive.

Workbench Structure

Analysis workbench

Modules

Quality Control

Visualize the samples that are part of your analysis.

Gene Expression

Rapidly plot gene expression without a runtime.

Compute Statistics

Visualize relationships between genes and/or observations.

Sample/Cell Explorer

Deep exploration of your dataset.

Cell Composition Analysis

Identify differences in cell composition between conditions.

Marker Genes

Plot gene expression across groups or samples or cells.

Differential Gene Expression

Run differential gene expression analysis.

Differential Pathway Activity

Run differential pathway activity analysis.

WGCNA

Run weighted gene co-expression network analysis.

Gene Set Enrichment

Run gene set enrichment analysis.

Module availability by workflow

Module	Microarray	Bulk RNA-seq	Single cell RNA-seq
Quality Control	✅	✅	✅
Gene Expression	✅	✅	✅
Compute Statistics	✅	✅	✅
Sample/Cell Explorer	✅	✅	✅
Cell Composition	❌	❌	✅
Marker Genes	✅	✅	✅
Differential Gene Expression	✅	✅	✅
Differential Pathway Activity	✅	✅	✅
WGCNA	✅	✅	❌ (coming soon)
Gene Set Enrichment	✅	✅	✅

Within some modules, multiple bioinformatics actions can be taken. Visit each module to learn about all the options in detail.

Result Details Structure

Some modules yield individualized results and each can be viewed in a details page. The result details page has a common structure across modules.

Result details page structure

Header

• Back button - navigate to the results listing for the selected module

• Result name

• Edit button - inline editing of the result name

• Info button - displays the parameters that were used to generate the result

• Delete button - permanently deletes the result

Main Content

A number of tabs, each presenting data either as plots or as data grids.