Standard workflow

Standard pipeline for Antisense therapeutics Design.

Pipeline unit:

Workflow

Run this workflow

ASOkai run --workflow standard --config-file ./config.yaml

ASOkai resolves and schedules missing dependencies automatically. Existing valid outputs and configured input overrides are reused.

Direct members

Pipeline unit	Details
instantiate-target-gene	Type: Task Description: Downloads genome data and creates the configured target gene.
generate-therapeutic-candidates	Type: Step Description: Generates therapeutic candidates for target sites.
compute-intrinsic-features	Type: Step Description: Computes nucleotide composition and CpG features for each target site.

Expanded steps

Nested tasks and workflows explicitly include these steps. Dependency planning may additionally resolve upstream steps needed to run them.

• download-genome — Downloads genome DNA, cDNA, annotation, and a reusable annotation database.

• create-target-gene — Creates a target gene, extracts target sites, and writes a region FASTA.

• generate-therapeutic-candidates — Generates therapeutic candidates for target sites.

• compute-intrinsic-features — Computes nucleotide composition and CpG features for each target site.