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rMVP GWAS analysis for plant genomics. Use when running genome-wide association studies, GWAS models (GLM, MLM, FarmCPU), SNP genotype formatting, kinship matrix calculation, population structure PCA,
Use with AI
Install the MCP server or CLI to instantly fetch rMVP documentation:
Install command
claude mcp add biocontext7 -- npx @biocontext7/mcpOr share this page: biocontext7.com/tools/rmvp
Use when estimating SNP heritability, local heritability, or genetic architecture from GWAS summary statistics. Covers per-locus heritability partitioning, total heritability estimation, LD matrix com
2 shared topics • 2 shared operations
IMPUTE5 for genotype imputation from phased haplotypes and a reference panel. Performs fast, accurate imputation using the Li and Stephens hidden Markov model with the PBWT data structure for efficien
2 shared topics • 2 shared operations
Use when performing Mendelian randomization (MR) analyses to estimate causal effects of exposures on outcomes using genetic variants as instrumental variables. Covers two-sample MR, IVW, MR-Egger, wei
2 shared topics • 2 shared operations
Use when working with odgi — the optimized dynamic genome/graph implementation toolkit — for pangenome variation graph manipulation, sorting, visualization, and analysis. Converts GFA graphs to effici
2 shared topics • 2 shared operations
scikit-allel — Python package for exploratory analysis of large-scale genetic variation data. Provides data structures for genotypes, haplotypes, and allele counts (GenotypeArray, HaplotypeArray, Alle
2 shared topics • 1 shared operation