The platform

One canvas for every analysis.

Assemble any of 1370 nodes into a workflow graph, inspect AI-assisted wiring, validate it locally, and opt into the cloud beta when managed compute is appropriate.

1370 nodes · 61 categories · 23 templates

fastq-qc.pipeline
running
0Analysis nodes
0Node categories
0Bundled templates

Explore in depth

Four surfaces, one portable pipeline.

Design once. The same workflow representation is shared by the desktop app and the managed cloud beta.

node registry — 1370 nodes, 61 categories
emboss_aaindexextractemboss_descseqemboss_garnieremboss_needleallemboss_printsextractemboss_splitsourceemboss_yankEmboss169aldex2ampvis2_setmetadatabrackencomebin_bamhumann_regroup_tablemerge_metaphlan_tablesvsearch_sortingMetagenomics97artic_minionbcftools_isecbcftools_plugin_tag2tagcnvkit_targetgatk_genotype_gvcfsmutect2vcftools_filterVariant96bbgtobigwigbedtools_coveragebedbedtools_multicovtbedbgzip_compressmummer4_delta_filterucsc_chainprenetucsc_wigtobigwigGenomics84vcflib_abba_babavcflib_segmentfstvcflib_vcfclassifyvcflib_vcfgenosamplenamesvcflib_vcfldvcflib_vcfregionreduce_uncompressedvcflib_wcfstVcflib82abricateamrfinderplusblastxml_to_gapped_gff3fraggenescanhmmer_hmmconvertinterproscanvep_annotateAnnotation54Extract genomic DNA 1bctools_merge_pcr_duplicatesseqfu_checkseqfu_orfseqfu_tabcheckseqtk_listhettracy_basecallSequence50csvtk_add_headercsvtk_del_headercsvtk_foldcsvtk_mutatecsvtk_renamecsvtk_splitcsvtk_xlsx2csvCsvtk47arribachira_mergefeaturecountsrseqc_fpkm_countrseqc_junction_saturationrseqc_read_qualitytximport_stringtieRna Seq45amas_concatclustalohyphy_b_stillhyphy_felhyphy_slacphylogenetic_tree_buildertrimalPhylogeny42seqkit_ampliconseqkit_fa2fqseqkit_headseqkit_renameseqkit_sanaseqkit_splitseqkit_watchSeqkit39bamutil_clip_overlapbioext_bealignbwa_indexcawlignhisat2_alignmmseqs2_easy_linsearchtracy_alignAlignment37arriba_draw_fusionschartscircos_gc_skewcircos_wiggle_to_scattergraphlan_annotatemanhattan_plotvolcano_plotVisualization36Add_a_column1calculate_numeric_paramcompose_text_paramextract_columnsmerge_tablesreshape_tabletsv_to_fastaData Transform33ai_data_extractionai_pipeline_advisoralphagenome_interval_predictorbiapyesmfold_predictnim_boltz2_predictproteinmpnn_designAi29bam_to_samsamtools_bam_to_samsamtools_coveragesamtools_fixmatesamtools_markdupsamtools_sam_to_bamsamtools_viewSamtools291370 registered nodes · 61 categories · sample shown
$ ready ✓

Built-in tools with visible environments.

1370 built-in nodes cover the stack, and each one is inspectable on the canvas before you run anything. BioNodulo provisions supported environments from the tools’ own package metadata, with the requirements in plain sight before the run starts.

nodes
1370

nodes

categories
61

categories

bundled templates
23

templates

Turn a paper into a starting workflow.

Enter a DOI to explore a suggested workflow based on the paper’s available information. Open it in the editor as a starting point and shape it into your own analysis.

bionodulo.com/doi/your-paper-doi

Illustrative workflow preview

Example single-cell RNA-seq workflow

Fixed example steps; no paper is retrieved for this preview.

Describe it, and watch it build.

An agent inside the editor. It reads your graph, adds and validates nodes against the real registry, runs the workflow, then reads the logs and fixes what broke. You review the plan instead of wiring every step by hand.

assistant
assistant-build · rna-qc.pipeline

nodes validated against the registry before they land

Start faster

23 bundled workflow starting points.

RNA-Seq, variant calling, single-cell, metagenomics, proteomics, spatial, and more. Open one on the canvas, inspect every step, and make it yours.

Start building your first pipeline.

Download the open-source desktop app and open one of 23 templates, or run in the cloud for RAM-heavy analyses.