ANCESTRYMAP specifications

Information


Unique identifier OMICS_02083
Name ANCESTRYMAP
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for ANCESTRYMAP

ANCESTRYMAP in publications

 (31)
PMCID: 5279752
PMID: 28135296
DOI: 10.1371/journal.pone.0170815

[…] as covariates (methods). because global differences in allele frequencies may exist between subpopulations particularly within the aa cohort, we estimated the percentage of african ancestry by ancestrymap[] using genotypes from 1401 ancestry-informative markers in 2,152 aa participants. for the aa cohort, none of the aa cnps are statistically significant with or without global ancestry […]

PMCID: 4957757
PMID: 27448167
DOI: 10.1371/journal.pone.0159977

[…] pcs were computed for each study using high-quality snps as previously described [,–,]. the first pc was highly correlated (r2 >0.87) with global african-european ancestry, as measured by ancestrymap [], structure [], or frappe []. the african american t2d study samples had an average of 80% african ancestry. by analyzing unrelated samples from all studies using smartpca [], […]

PMCID: 4749250
PMID: 26863142
DOI: 10.1371/journal.pgen.1005847

[…] [], is an inaccurate ancestral population for puerto ricans, which might produce artifacts in local ancestry inference. third, price and colleagues analyzed a larger sample using their software ancestrymap [] and did not discover the deviation of local ancestry reported by tang and colleagues., we would like to make the following comments. first, the ancestrymap uses the so called ancestry […]

PMCID: 4586512
PMID: 26483834
DOI: 10.3389/fgene.2015.00292

[…] others conducted follow-up admixture peak region with a nominal p-value < 1 × 10−3 (gomez et al., )., well-established first generation admixture analysis tools for from sparse aims panels (e.g., ancestrymap, admixmap) are used in asthma to identify genomic regions that differ significantly between ancestries (hoggart et al., ; patterson et al., ). like local and global ancestry tools, hidden […]

PMCID: 4467177
PMID: 26124773
DOI: 10.3389/fgene.2015.00210

[…] in a position intermediate to the parental and outlying populations. for each individual a local and a genome-wide ancestry, indicated by the proportion of european bos taurus, was estimated using ancestrymap () using a burn-in period of 100 iterations with 200 follow-on iterations. the stability of the result was monitored by increasing the burn-in period and follow-on iterations by a factor […]


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ANCESTRYMAP institution(s)
Program in Medical and Population Genetics, Broad Institute, Cambridge, MA, USA

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