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Haplotype frequency estimation software tools | Pool sequencing data analysis

A variety of hypotheses have been proposed for finding the missing heritability of complex diseases in genome-wide association studies. Studies have focused on the value of haplotype to improve the power of detecting associations with disease. To…
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Harp
Desktop

Harp Haplotype Analysis of Reads in Pools

Implements an EM algorithm to calculate the frequencies of known haplotypes…

Implements an EM algorithm to calculate the frequencies of known haplotypes from pooled sequence data.

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Ehapp
Desktop

Ehapp

Taking advantage of prior haplotype information contained in the database, it…

Taking advantage of prior haplotype information contained in the database, it infers haplotype frequencies from pooled sequencing data. It is open source and available for download and can be easily…

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LDx
Desktop

LDx

A computational tool for estimating linkage disequilibrium (LD) from pooled…

A computational tool for estimating linkage disequilibrium (LD) from pooled resequencing data.

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PoolHap
Desktop

PoolHap Inferring Haplotype frequencies from Pooled sequencing

A tool enabling researchers to infer the strain numbers and haplotype…

A tool enabling researchers to infer the strain numbers and haplotype frequencies in silico from sequences of pooled samples.

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eALPS
Desktop

eALPS

Uses the genotype data in conjunction with the pooled sequence data in order to…

Uses the genotype data in conjunction with the pooled sequence data in order to accurately estimate the proportions of the samples in the pool, even in cases where not all individuals in the pool…

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