Table 1 Data portals for quality control studies based on reference materials
From: The Quartet Data Portal: integration of community-wide resources for multiomics quality control
GIAB | HUPO-PSI | MAQC/SEQC | mQACC | Quartet | Sequin | |
|---|---|---|---|---|---|---|
Reference materials request | Links to NIST, Coriell, and PGP | No | No | No | Direct application | Direct application |
Data availability | Links to FTP | No | Links to NCBI SRA and FTP | No | Direct download | No |
Analysis tools | A package of hap.py and a web-based implementation of this tool in GA4GH Benchmarking app on precisionFDA | Dozens of packages for exchanging data formats, capturing molecular interactions, and reporting data quality | Example codes for benchmarking, a R package containing summarized read counts and exon-exon junctions | No | Online applications for analyzing and reporting the user-submit data quality | No |
Data retrieval | No | No | No | No | Raw sequencing data or quantitative profiles, and structured metadata | No |
Account requirement | Yes | No | No | No | Yes | Yes |
Additional assistance | Connections to opportunities, e.g., workshops and collaborations | Controlled vocabularies, reporting guidelines for proteomics | Many types of tutorials | No | Interactive visualization | No |