Quality-control scripts for biomedical data pipelines that track datasets in Synapse, a data-sharing platform used by several research consortia. Each pipeline here is a working example of what QC for its data type can look like — see each pipeline's own README for background, usage, and a full breakdown of what it checks.
scrnaseq_qc_pipeline/— QC for single-cell RNA-seq data tracked in Synapse but originating from a public archive (GEO/SRA): cross-checks curated Synapse annotations against GEO's own record, verifies downloaded raw sequencing data against the archive's own record, runs read-quality/contamination screening, and sanity-checks processed (CellRanger) output matrices.