One assembled pipeline
Direct Build
Move from source to target without creating a Workflow Brief. Review checkpoints still apply.
Build Galaxy workflows
from anything.
Build directly from a paper, interview, Nextflow pipeline, or CWL workflow. For paper,
interview, and Nextflow sources, you can instead create a Workflow Brief first, review it
with an expert, and build from the agreed plan. Every route decomposes the work into atomic,
schema-validated steps grounded in
gxwf's static validation.
Choose your route
/ the same building blocks, with or without a planning artifactChoose Direct Build when you want source-to-target work in one pipeline. Choose Plan & Build when you want a separate, durable Workflow Brief that an expert can review and edit before implementation.
Commands and installation →A reviewable planning boundary
Plan & Build
Create a Workflow Brief, refine it with an expert, then build from the agreed plan.
- 1
- 2 Expert review & edit Inspect decisions, resolve blockers, and revise the Workflow Brief.
- 3 Build from the brief WORKFLOW BRIEF → GALAXY
Foundry story
/ why this shape Molds into casts
Make the knowledge base actionable.
The Foundry keeps workflow-construction knowledge as inspectable notes: patterns, research, CLI docs, schemas, and best practices. Molds turn that rich source record into statically validated cast artifacts, so agents can load portable generated skills without losing the trail back to the documented reasoning.
MAP collection patterns Choose a Galaxy collection operation or map-over recipe from the current and required data shapes. map 18 links MAP conditionals patterns Choose a Galaxy when gate, routed output, fallback, or collection cleanup by what must change downstream. map 5 links MAP genomic interval patterns Use this MOC to choose corpus-grounded Galaxy genomic interval operations and recipes on coordinate features. map 8 links MAP sequence patterns Use this MOC to choose corpus-grounded Galaxy operations on sequence records (FASTA) — interconvert, reformat, merge, length, extract/mask by region. map 6 links MAP tabular patterns Use this MOC to choose corpus-grounded Galaxy tabular transformation patterns. map 14 links
01 split into collection by key Split a tabular file into a list collection by column value, grouping rows that share an identifier. draft operation 02 synthesize BED from 3-column input Convert one-based inclusive chromosome/start/end rows to six-column BED with awk, after checking the source coordinate convention. draft operation 03 split taxonomy string Expand a prefixed taxonomy lineage into fixed rank columns with tp_awk_tool, preserving row identity and handling absent ranks. draft operation 04 SQL query Load tabular datasets into Query Tabular for SQL joins, window calculations, and queries that combine several tabular operations. draft operation