Browser tool · build & check

Cytoscape Import Table Builder

Build node and module/color import tables, or compare a network node table with an annotation table before importing. Keep source identifiers intact and inspect key differences before choosing how to join.

Your CSV stays in this browser. The page does not upload or save it.

Related tool: Scientific Palette Explorer · Configure colours independently, then optionally load them here.

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Final gene annotation CSV Node attributesModule/color lookup

Final annotation CSV

Gene is required and must be unique. The optional module, color, label, and core-gene columns follow the evidence-mapping workflow. This is an invented sample, not a biological result.

Choose a CSV file or paste/edit the CSV below

Saved module colours (optional)

Use a saved JSON / CSV mapping to keep module colours consistent across figures. Open Scientific Palette Explorer to configure colours independently. Names are trimmed and case-sensitive; unknown modules block export.

Use saved module colours Choose a JSON / CSV mapping Or paste the saved mapping Allow replacing conflicting colours in the exported copy

No automatic recolouring: gene-specific overrides are conflicts in this mode. Blank modules use the existing “Unclassified” key, which must be in your mapping. Without this option, original defaults and overrides are unchanged.

Preview the synthetic example or use your own final annotation table.

Check before export

Node table preview

The first six node rows will appear here after validation.

What this tool does—and does not do

It matches the workflow’s default sizes (42 px; 56 px for core genes), label sizes (10/12 px), and borders (0.8/2.0 px). Without saved mapping, missing modules become “Unclassified” and missing colors become gray; gene-specific overrides are retained, so the lookup can contain more than one color per module. With saved mapping, every module must have a mapped color and conflicting overrides require explicit replacement.

In Cytoscape, import the node CSV into your existing network using Gene as the matching key. To use its exact colours, set Fill Color to a Passthrough Mapping on Primary_fill_color_hex. This page does not generate a Cytoscape style or session.

It does not infer modules, check biological evidence, build edges, create a Cytoscape network, or generate the workflow’s provenance files. For the complete evidence and heatmap pipeline, see Functional Module Evidence Mapping.

Import preflight · identifiers unchanged

Cytoscape Table Match Checker

Compare the actual network node table with the annotation table you intend to import. Select the key column on each side; exact coverage uses unique nonblank network keys, not row counts.

Matching is case-sensitive and keeps leading/trailing spaces. Possible text differences are diagnostic only: they do not count as matches or change either table.

1 · Network node table

Use an exported node table, not an edge list or Cytoscape session. Use all intended nodes; a selected-node export only checks that subset.

Choose a UTF-8 CSV / TSV Delimiter Or paste the network table Network key column

No table inspected yet.

2 · Annotation table

Use the actual annotation or built node CSV you will import. Excel must be exported as UTF-8 CSV / TSV first. Key values stay as text, including leading zeros.

Choose a UTF-8 CSV / TSV Delimiter Or paste the annotation table Annotation key column

No table inspected yet.

Choose or paste two tables, inspect their columns, then explicitly select both keys.

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Node table preview

Module/color lookup

1 · Network node table

2 · Annotation table

Key comparison