| Version 5 (modified by , 14 years ago) (diff) |
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Compare Sequence Data With Genotype Chip
Status: Alpha Authors: Patrick Deelen, Morris Swertz
Tool to compare sequence data with data from genotyping chips.
Features
- Overview of concordance per sample
- Matrix of all sequence samples vs all genotype samples
- This is used to detected sample mix-ups
- Performance per SNP
Input
The genotype data input is currently PED/MAP as generated by plink.
Both QCed as non QCed data is supported. The following sequence file formates are supported
- VCF
- Q20 (as provided by BGI)
- CNS
Future
- Plots to give more insight in SNP performance
Attachments (6)
- pilot.bgi.nosex.concordance.jpg (58.5 KB) - added by 14 years ago.
- bgi.snps.comparison.jpg (62.8 KB) - added by 14 years ago.
- pilot.immuno_seq.concordance.v2.jpg (53.2 KB) - added by 14 years ago.
- pilot.immuno.seq.gen.concordance.test.jpg (57.7 KB) - added by 14 years ago.
- bgi.immuno_seq.concordance.v2.jpg (56.1 KB) - added by 14 years ago.
- pilot.immuno.seq.gen.concordance.test.2.jpg (57.7 KB) - added by 14 years ago.
Download all attachments as: .zip
