Man pages for XiaoleiLiuBio/MVP
Memory-Efficient, Visualize-Enhanced, Parallel-Accelerated GWAS Tool
| MVP | MVP, Memory-efficient, Visualization-enhanced,... |
| MVP.BRENT.Vg.Ve | MVP.BRENT.Vg.Ve variance component estimation using the BRENT... |
| MVP.calk | Calculate Kinship matrix by Blocking strategy |
| MVP.Data | MVP.Data: To prepare data for MVP package Author: Xiaolei... |
| MVP.Data.Bfile2MVP | MVP.Data.Bfile2MVP: To transform plink binary data to MVP... |
| MVP.Data.Hapmap2MVP | MVP.Data.Hapmap2MVP: To transform Hapmap data to MVP package... |
| MVP.Data.impute | MVP.Data.impute: To impute the missing genotype Author:... |
| MVP.Data.Kin | Kinship |
| MVP.Data.Map | MVP.Data.Map: To check map file Author: Haohao Zhang Build... |
| MVP.Data.MVP2Bfile | MVP.Data.MVP2Bfile: To transform MVP data to binary format... |
| MVP.Data.Numeric2MVP | MVP.Data.Numeric2MVP: To transform Numeric data to MVP... |
| MVP.Data.PC | Principal component analysis |
| MVP.Data.Pheno | MVP.Data.Pheno: To clean up phenotype file Author: Haohao... |
| MVP.Data.VCF2MVP | MVP.Data.VCF2MVP: To transform vcf data to MVP package... |
| MVP.EMMA.Vg.Ve | Estimate variance components using EMMA |
| MVP.FarmCPU | Perform GWAS using FarmCPU method |
| MVP.FaSTLMM.LL | Evaluation of the maximum likelihood using FaST-LMM method |
| MVP.GLM | To perform GWAS with GLM and MLM model and get the P value of... |
| MVP.HE.Vg.Ve | To estimate variance component using HE regression |
| MVP.Hist | Phenotype distribution histogram |
| MVP.K.VanRaden | Calculate Kinship matrix by VanRaden method |
| MVP.MLM | To perform GWAS with GLM and MLM model and get the P value of... |
| MVP.PCA | Principal Component Analysis |
| MVP.PCAplot | PCA Plot |
| MVP.Report | MVP.Report |
| MVP.Report.Density | SNP Density |
| MVP.Report.QQplot | QQ Plot |
| MVP.Version | Print MVP Banner |
| pig60K | Genotyped by pig 60k chip |
| reexports | Objects exported from other packages |
