Overview
PLSKO generates partial-least-squares-based knockoff variables and applies knockoff filtering for omics feature selection. Its R workflow includes single and aggregated filtering routes, importance statistics and selected-variable outputs.
What can this tool do?
Common uses
- PLSKO generates partial-least-squares-based knockoff variables and applies knockoff filtering for omics feature selection.
Scientific fit
Primary function
Machine learning and prediction
Other functions
Statistical analysis
Analysis types
Metabolite profiling, Multi-omics
Data compatibility
Inputs
Feature or peak table, Sample metadata
Outputs
Statistical results
Input formats
Numeric predictor matrix, response vector and target FDR level
Output formats
Knockoff matrices, importance statistics and selected-variable objects
Scope and considerations
Designed for
- PLSKO generates partial-least-squares-based knockoff variables and applies knockoff filtering for omics feature selection.
Not designed for
- Causal biomarker discovery or unconditional false-discovery guarantees when knockoff/model assumptions are violated.
Important requirements
- R and documented knockoff/mixOmics dependencies, a numeric predictor matrix, response vector and target false-discovery-rate setting; tune the knockoff construction for the data.
Considerations
- Assess exchangeability and model settings, distinguish predictive importance from causal effects and keep tuning/evaluation data appropriately separated.
Access and documentation
MIT source distribution. External datasets, dependent packages and any hosted routes retain their own terms; software operation was not tested.
License: MIT
Evidence and review
Enveda intake rechecked against official repository documentation, package/license metadata and primary publication identity on 2026-10-27. Editorial source review only; no software execution or independent benchmark. See docs/enveda-expansion-review-2026-10-27-batch3.md.
Core publications
Resource papers, direct updates and tool-specific methods. Selection policy.
- PLSKO: a robust knockoff generator to control false discovery rate in omics variable selection. Bioinformatics (2025). doi:10.1093/bioinformatics/btaf475
Related tools
Entry history
Changes to this catalogue entry, not the tool's software release history. Acceptance and editorial review are separate.
- 2026-10-27 · First committed entry
Add 45 source-reviewed Enveda tool entries in third expansion batch
View change · Entry at this revision