soloboan/ROHs soloboan/ROHs

  • Stars
    star
    1
  • Language
    R
  • Created over 8 years ago
  • Updated about 6 years ago
Twitter logo Share LinkedIn logo Share Facebook logo Share
soloboan/ROHs
github

soloboan

Reviews

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

Repository Details

Generate binary runs of homozygosity files from PLINK output and making ROH plots per sample and averages

More Repositories

1

Multi-trait_simulations

Simulation program for single and multi-traits based purely on pedigree. Different mating designs (ranging from nested, factorial to random union of gamete), selection criterion (mass, high and low TBV, index selection), genetic and residual correlations have been implemented
R
4
star
2

dEBV_Garrick

Deregression based on Garrick et al. (2009). With pedigree and files containing EBVs, Deregression is undertaken and deregressed EVC, deregressed reliabilities and weights are outputted.
R
3
star
3

imputation

Bash script that allows you to run BEAGLE v3, v4, and FIMPUTE using PLINK format binary input files.
Shell
2
star
4

accuracy_imputation

comprehensive function for computing imputation accuracy. Accuracy has been computed as % correct, allelic error rate, correlation and correlation based on centered and scaled genotypes.
R
2
star
5

Parentassigment_OHm

Parentage assignment using opposite homozygote methods.
R
1
star
6

selindexaccuracy

based on selection index formulaes, computed expected accuracies of selection when information source comes from mass, progeny, full-sib, hal-sibs, parents, etc
R
1
star
7

haplos_analysis

Using haplotype blocks defined by Haploview and phased data, build the haplotype counts (change haplotypes into copies 0,1,2). Compute Genomic relationships based on the haplotypes
R
1
star