DecoNFlow

drag to pan, scroll to zoom, click a line to focus
{"groups":[{"color":"#24B064","id":"classic","label":"Reference-based (Houseman, EpiDISH, CIBERSORT, ...)"},{"color":"#E6550D","id":"em","label":"Reference-based (CelFiE, MetDecode)"},{"color":"#756BB1","id":"reffree","label":"Reference-free (MeDeCom, RefFreeCellMix)"}],"height":1350,"match":{"flags":"i","target":"fqProcessName","type":"regex"},"nodes":[{"groups":["classic","em"],"h":14.0,"id":"ref_in","label":"ref_in","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":80.0,"y":322.4},{"groups":["classic","em"],"h":14.0,"id":"regions_in","label":"regions_in","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":80.0,"y":456.0},{"groups":["classic"],"h":10.0,"id":"refmat_in","label":"refmat_in","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":80.0,"y":253.6},{"groups":["classic","em"],"h":14.0,"id":"format_ref","label":"Format coverage","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":176.0,"y":322.4},{"groups":["classic","em"],"h":14.0,"id":"preprocessing","label":"Preprocessing","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":345.5,"y":389.2},{"groups":["classic","em"],"h":14.0,"id":"merge_atlas","label":"Merge samples","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":405.5,"y":389.2},{"groups":["classic","em"],"h":14.0,"id":"limma","label":"limma DMRs","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":465.5,"y":389.2},{"groups":["classic"],"h":10.0,"id":"process_refmat","label":"Process ref. matrix","patterns":[],"r":5.0,"region":"markers","rx":5.0,"w":10.0,"x":176.0,"y":387.2},{"groups":["classic","em"],"h":14.0,"id":"bulk_in","label":"bulk_in","patterns":[],"r":5.0,"region":"bulkprep","rx":5.0,"w":10.0,"x":651.5,"y":322.4},{"groups":["classic","em"],"h":14.0,"id":"format_bulk","label":"Format coverage","patterns":[],"r":5.0,"region":"bulkprep","rx":5.0,"w":10.0,"x":711.5,"y":322.4},{"groups":["classic","em"],"h":14.0,"id":"test_prep","label":"Bulk preprocessing","patterns":[],"r":5.0,"region":"bulkprep","rx":5.0,"w":10.0,"x":852.5,"y":389.2},{"groups":["classic"],"h":10.0,"id":"merge_test","label":"Merge samples","patterns":[],"r":5.0,"region":"bulkprep","rx":5.0,"w":10.0,"x":972.5,"y":387.2},{"groups":["classic"],"h":10.0,"id":"meth_atlas","label":"MethAtlas","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":120.0},{"groups":["classic"],"h":10.0,"id":"houseman_eq","label":"Houseman CP/EQ","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":186.8},{"groups":["classic"],"h":10.0,"id":"houseman_ineq","label":"Houseman CP/INEQ","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":253.6},{"groups":["classic"],"h":10.0,"id":"epidish","label":"EpiDISH","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":320.4},{"groups":["classic"],"h":10.0,"id":"cibersort","label":"CIBERSORT","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":454.0},{"groups":["classic"],"h":10.0,"id":"prmeth","label":"PRMeth","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":520.8},{"groups":["classic"],"h":10.0,"id":"episcore","label":"EpiSCORE","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":587.6},{"groups":["classic"],"h":10.0,"id":"methyl_resolver","label":"MethylResolver","patterns":[],"r":5.0,"region":"refbased","rx":5.0,"w":10.0,"x":1278.5,"y":654.4},{"groups":["em"],"h":10.0,"id":"celfie_prep","label":"CelFiE-format\nreference","patterns":[],"r":5.0,"region":"emdeconv","rx":5.0,"w":10.0,"x":1195.0,"y":970.9},{"groups":["em"],"h":10.0,"id":"merge_em","label":"Merge ref. + bulk","patterns":[],"r":5.0,"region":"emdeconv","rx":5.0,"w":10.0,"x":1255.0,"y":970.9},{"groups":["em"],"h":10.0,"id":"celfie","label":"CelFiE","patterns":[],"r":5.0,"region":"emdeconv","rx":5.0,"w":10.0,"x":1451.5,"y":904.1},{"groups":["em"],"h":10.0,"id":"intersect","label":"Intersect regions","patterns":[],"r":5.0,"region":"emdeconv","rx":5.0,"w":10.0,"x":1451.5,"y":1037.7},{"groups":["em"],"h":10.0,"id":"metdecode","label":"MetDecode","patterns":[],"r":5.0,"region":"emdeconv","rx":5.0,"w":10.0,"x":1511.5,"y":1037.7},{"groups":["reffree"],"h":10.0,"id":"bulk_rf_in","label":"bulk_rf_in","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":80.0,"y":1209.6},{"groups":["reffree"],"h":10.0,"id":"regions_rf_in","label":"regions_rf_in","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":80.0,"y":1276.4},{"groups":["reffree"],"h":10.0,"id":"format_rf","label":"Format coverage","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":140.0,"y":1209.6},{"groups":["reffree"],"h":10.0,"id":"refree_prep","label":"Preprocessing","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":258.5,"y":1243.0},{"groups":["reffree"],"h":10.0,"id":"merge_rf","label":"Merge samples","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":318.5,"y":1276.4},{"groups":["reffree"],"h":10.0,"id":"medecom","label":"MeDeCom","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":478.0,"y":1209.6},{"groups":["reffree"],"h":10.0,"id":"refcellmix","label":"RefFreeCellMix","patterns":[],"r":5.0,"region":"reffree","rx":5.0,"w":10.0,"x":478.0,"y":1276.4},{"groups":["classic","em"],"h":14.0,"id":"combine_rb","label":"Combine ref-based","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":1733.5,"y":322.4},{"groups":["reffree"],"h":10.0,"id":"combine_rf","label":"Combine ref-free","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":1733.5,"y":520.8},{"groups":["classic","em"],"h":14.0,"id":"refbased_out","label":"refbased_out","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":1863.5,"y":255.6},{"groups":["reffree"],"h":10.0,"id":"reffree_out","label":"reffree_out","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":1869.5,"y":587.6},{"groups":["classic","em"],"h":14.0,"id":"gt_in","label":"gt_in","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":1733.5,"y":456.0},{"groups":["classic","em","reffree"],"h":18.0,"id":"report","label":"HTML report","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":2010.0,"y":391.2},{"groups":["classic","em","reffree"],"h":18.0,"id":"report_out","label":"report_out","patterns":[],"r":5.0,"region":"output","rx":5.0,"w":10.0,"x":2070.0,"y":391.2}],"regions":[{"id":"markers","label":"Marker selection"},{"id":"bulkprep","label":"Bulk sample preprocessing"},{"id":"refbased","label":"Reference-based deconvolution: beta values"},{"id":"emdeconv","label":"Reference-based deconvolution: read counts"},{"id":"reffree","label":"Reference-free deconvolution"},{"id":"output","label":"Results"}],"title":"DecoNFlow","version":"1.0","width":2188} DecoNFlow 1 Marker selection 2 Bulk sample preprocessing 3 Reference-based deconvolution: beta values 4 Reference-based deconvolution: read counts 5 Reference-free deconvolution 6 Results CSV Reference samples BED Regions or CGIs TSV Reference matrix CSV Bulk samples CSV Bulk samples BED Regions or CGIs CSV Ref-based proportions CSV Ref-free proportions CSV Ground truth HTML Report Combine ref-based CelFiE-format reference Combine ref-free MethAtlas Houseman CP/EQ Houseman CP/INEQ EpiDISH CIBERSORT PRMeth EpiSCORE MethylResolver Format coverage Format coverage Process ref. matrix HTML report Merge ref. + bulk Format coverage Preprocessing Bulk preprocessing CelFiE Intersect regions Preprocessing Merge samples Merge samples MetDecode Merge samples limma DMRs MeDeCom RefFreeCellMix created with nf-metro v2.1.0

Embed snippets

Interactive HTML (inline). Self-contained snippet - paste into any HTML host (MkDocs, Confluence, Notion, blog templates) and it keeps full pan / zoom / line-filter. No iframe, no hosting. 


        

          Interactive (iframe). Host this HTML file and embed the iframe. GitHub READMEs strip iframes
          - link to a hosted page from the README instead.
        

        

          
          
        

        

        

          Static SVG. Inline this anywhere that accepts raw HTML (or save it as .svg). No interactivity
          but it renders even where scripts are stripped.