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Call Rate

Definition
AI-generated

Call rate is the proportion of genotypes successfully assigned by the genotyping platform or analysis pipeline.

Topics
GWAS
Related
Quality Control (QC) Sample Missingness Variant Missingness

Why it matters in GWAS

Low call rate often indicates poor DNA quality, assay failure, or technical artifacts, and is a standard trigger for QC exclusion.

Example usage

"Samples with call rate below 98% and SNPs with call rate below 99% were removed before imputation."

Quality Control (QC) Sample Missingness Variant Missingness
Related-term network

Click any node to open that term page.

Node order. The current term is first. Next come every page linked from Related terms, in the same top-to-bottom order as that list. Then new terms appear in two-hop layers: for each of those direct neighbors (in that same order), their related terms are appended if not already listed. A third pass does the same for two-hop nodes. The walk stops when a fixed maximum number of nodes is reached.

References

  • Anderson CA, et al. (2010). Data quality control in genetic case-control association studies. Nat Protoc.
← Calibration Callability →

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