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Birdseed

Description

Birdseed is a genotyping algorithm used for the detection of single nucleotide polymorphisms (SNPs) in GDC genotyping array data harmonization.

Overview

Birdseed is utilized for genotyping SNPs from microarray data. This pipeline processes raw array data, identifies SNPs, and generates genotype calls. It is specifically designed for genotyping arrays such as the Affymetrix SNP 6.0 array, providing accurate SNP detection across different sample types. Birdseed files were originally processed and generated by the TCGA program and brought into the GDC Data Portal when the GDC Legacy Archive was retired.

Input

  • Tumor CEL - Genotyping Array
  • Normal CEL - Genotyping Array

Output

  • TSV (Data Type: Simple Germline Variation)

References

  1. Copy Number Variation Analysis Pipeline
  2. SNP Array-Based Data

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