pacsomatic
k-dense-ai1.3k installs
Launch matched tumor-normal HiFi analysis.
What it does
Prepares reproducible launch files and runs a matched tumor-normal PacBio HiFi genomics workflow locally or through a scheduler.
When to use it
Use to prepare and execute analysis of one matched PacBio HiFi tumor-normal pair from unaligned BAM files.
How to use it
Give it matched tumor-normal BAM files, identifiers, an output directory and a reference; it generates launch files and executes the workflow only when requested.
What you provide
- patient ID
- tumor and normal sample IDs
- output directory
- reference FASTA or genome key
- Your files
Uses
NC
Latest review
What you need · 4
Requires Python 3.10 or later to run the standard-library helper.
Workflow execution requires Nextflow 24.04.2 or later; artifact generation can continue without it.
Access · 3
This skill
GitHub
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Fetches upstream pipeline code
nf-core/configs
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Loads mutable pipeline configuration