Execution Flow by Request
This page provides an overview of the rule execution flow tailored to different request specified in the job configuration file of NovaScope.
Each request option triggers a specific set of rules. Thus, below provides a rulegraph for each request option to outline the triggered rules and their interdependencies, detailing distinct processing paths.
Info
The rulegraphs below are constructed from a baseline scenario where only the initial input 1st-seq and 2nd-seq FASTQ files are present, with no prior processing or intermediate files generated.
"sbcd-per-flowcell"¶
"sbcdlo-per-flowcell"¶
"sbcd-per-chip"¶
"smatch-per-chip"¶
"align-per-run"¶
"sge-per-run"¶
"histology-per-run"¶
"transcript-per-unit"¶
"filterftr-per-unit"¶
"filterpoly-per-unit"¶
"segment-10x-per-unit"¶
Without SGE filtering¶
- When requesting hexagon-indexed SGE without gene-filtering and polygon-filtering:
With SGE filtering¶
- When requesting hexagon-indexed SGE with gene-filtering and polygon-filtering:
"segment-ficture-per-unit"¶
Without SGE filtering¶
With SGE filtering¶
