bio-rna-quantification-tximport-workflow
Pass
Audited by Gen Agent Trust Hub on Aug 14, 2026
Risk Level: SAFE
Full Analysis
- [SAFE]: The skill documents standard practices for gene-level quantification using
tximportandDESeq2. All code patterns utilize well-known R libraries (tximport,DESeq2,edgeR,tximeta,biomaRt) for their intended purposes. - [COMMAND_EXECUTION]: The skill uses expected R commands for file reading (
read.csv,read.table) and writing (write.csv). These operations are scoped to local project files (e.g.,tx2gene.csv,quant.sf) as part of a typical data analysis pipeline. - [EXTERNAL_DOWNLOADS]: The
usage-guide.mdincludes instructions for installing packages viaBiocManager::install(). This is the official and trusted method for managing Bioconductor packages. - [DATA_EXPOSURE]: There is no evidence of hardcoded credentials, sensitive file access, or unauthorized network operations. Network calls are limited to official annotation services (Ensembl via
biomaRt) and package managers, which are necessary for the skill's stated function.
Audit Metadata