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Table 1 Estimation the transition parameters and the states

From: A Hidden Markov Model to estimate population mixture and allelic copy-numbers in cancers using Affymetrix SNP arrays

  

True r

True p

Estimation

0.001

0.01

0.05

0.1

 

p

0.00115

0.00104

0.00101

0.00107

0.001

r

0.00108

0.01028

0.04889

0.09462

 

Accuracy

0.99965

0.99893

0.99487

0.99227

 

p

0.00959

0.00994

0.00934

0.01006

0.01

r

0.00112

0.01057

0.04931

0.09588

 

Accuracy

0.99725

0.99622

0.99303

0.98850

 

p

0.04861

0.04831

0.04794

0.04849

0.05

r

0.00109

0.01034

0.04812

0.09402

 

Accuracy

0.99180

0.99000

0.98517

0.98018

 

p

0.09551

0.09356

0.09603

0.09300

0.1

r

0.00140

0.01006

0.04857

0.09480

 

Accuracy

0.99233

0.98980

0.98269

0.97708

  1. For each pair of true p and r parameters, we simulated six samples where all SNPs were given a heterozygous call in the germline DNA. Here we report the average of the estimation for p and r and how often the true copy-number state is recovered.
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BMC Bioinformatics

ISSN: 1471-2105

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