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FINDHAP

Metadata Updated: September 21, 2023

The findhap.f90 program finds haplotypes and imputes genotypes using multiple chip sets and sequence data. Program and download information can be found at the Animal Improvement Program (AIP) web site: http://aipl.arsusda.gov/software/findhap Downloads Version 4 program, example files, and executable (beta version — not quite ready for routine use on U.S. chip data, but performs better than version 3 for sequence data) Example data files for imputation study presented by VanRaden and Sun at the 2014 World Congress on Genetics Applied to Livestock Production

Files include actual pedigree, simulated true genotypes, simulated sequence reads, and imputed genotypes. This example used 500 reference bulls sequenced at 4× with 1% error and containing high-density SNPs; the 250 young bulls used to test imputation had only high-density SNPs. Other examples in the study can be generated by setting other options for programs findhap4, geno2seq, and genosim.

Access & Use Information

Public: This dataset is intended for public access and use. License: Creative Commons CCZero

Downloads & Resources

Dates

Metadata Created Date March 6, 2022
Metadata Updated Date September 21, 2023

Metadata Source

Harvested from USDA JSON

Additional Metadata

Resource Type Dataset
Metadata Created Date March 6, 2022
Metadata Updated Date September 21, 2023
Publisher Agricultural Research Service
Maintainer
Identifier 32c52e5f-073f-4386-bb97-f9cca46a6fbf
Data Last Modified 2022-02-03
Public Access Level public
Bureau Code 005:18
Metadata Context https://project-open-data.cio.gov/v1.1/schema/catalog.jsonld
Schema Version https://project-open-data.cio.gov/v1.1/schema
Catalog Describedby https://project-open-data.cio.gov/v1.1/schema/catalog.json
Harvest Object Id 729c78db-0c76-4d2e-9e2e-ea3d73eecd94
Harvest Source Id d3fafa34-0cb9-48f1-ab1d-5b5fdc783806
Harvest Source Title USDA JSON
License https://creativecommons.org/publicdomain/zero/1.0/
Program Code 005:040
Source Datajson Identifier True
Source Hash 82ba45cea5c290009cf44da06bf08777f2c541e9bfb80b916aba7c8ea8f33cbd
Source Schema Version 1.1

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