PaintOmics 4
A web server for the integrative analysis and visualisation of multi-omics datasets using biological pathway maps. It supports pathway databases like KEGG, Reactome, and MapMan, and includes features such as metabolite hub analysis and regulatory omics functionality.
Basic Information
| Repository | https://github.com/ConesaLab/paintomics4 |
| Documentation | https://paintomics.readthedocs.io/ |
| Seminar | Ana Conesa presents the tool PaintOmics4 |
| Main publication (DOI) | 10.1093/nar/gkac352 view |
| Contact email | ana.conesa@csic.es |
| Authors/Maintainers | Ana Conesa |
| Type of application | Web-service |
| Programming languages | PythonRJavaScriptMongoDB |
| Keywords | Omics, Computational Methods, Resources, Transcriptomics, RNA Sequencing (RNA-seq), Data Analysis, Bioinformatics Software and Tools, Analysis packages (R, Python, etc.), Data Visualization, Genomics, Bioinformatics Infrastructure, Expression Profiling, Systems Biology, Epigenomics, DNA methylation, Integrative Analysis, Regulatory biology, Web-service, Data Repositories, Chromatin accessibility, Proteomics, Pathway analysis, Metabolomics, Metabolome profiling, Network Biology, Single-cell omics, Single-cell (scRNA-seq) |
Technical details
| Input file formats | csv, tsv, gff, gtf, bed |
| Output file formats | csv, tsv, html |
| Software compatibility | Linux, Mac, Windows |
| Hardware requirements | No requirement |
| Type of containerization | Conda |
| Wrapper type | None |
| Compatible tools | KEGG, Reactome, MapMan |
| Funding resource | National competitive funding, EU funding |
| Funding support | No funding |
Statistics
| Unique users (last 12 months) | 100-1000 |
| Unique users (since first release) | 100-1000 |
| Software downloads (last 12 months) | <100 |
| Software downloads (since first release) | <100 |
| Jobs submitted (last 12 months) | 100-1000 |
| Jobs submitted (since first release) | 1000-10000 |
| Repository clones (last 12 months) | <100 |
| Repository clones (since first release) | <100 |
| Citations (last 12 months) | <100 (~27 as of 15/10/2026) |
| Citations (since first release) | 100-1000 (100 as of 15/10/2026) |
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| Early-stage researcher effort (maintenance) | |
| Technician-supported effort (development) | |
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| Total effort (maintenance) |