Update interactive flowchart: data flow corrections and layout improvements#1368
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- Add Step 3 (geno/pheno/cov-prep) → Step 5b connections for individual-level fine-mapping methods (SuSiE/mvSuSiE/fSuSiE) - Add section descriptions to each pipeline stage card - Fix ColocBoost wiki link to pecotmr_integration/colocboost.html - Split Gene Expression into Bulk and Pseudobulk parallel tracks - Various badge and layout fixes Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
…sumstats input ColocBoost uses QTL sumstats (QtlDataset RDS) directly, not GWAS sumstats — add the missing qtl-assoc→gwas-integ connection. Also correct the ref-data→gwas-integ label from "LD reference + gene annotations" to "GWAS sumstats + LD reference" since SuSiE-enloc and cTWAS require external GWAS sumstats as their primary input. Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>
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Summary
mnm_analysis/mnm_methods/colocboost.html→pecotmr_integration/colocboost.htmlTest plan
https://statfungen.github.io/xqtl-protocol/xqtl_flowchart.htmlafter merge🤖 Generated with Claude Code