Man pages for jendelman/polyBreedR
Genomics-assisted breeding for polyploids (and diploids)
| ADsplit | Extract read counts from AD string |
| A_mat | Additive relationship matrix from pedigree |
| array2vcf | SNP array to VCF |
| check_ploidy | Check ploidy for tetraploids |
| check_trio | Check markers for parent-offspring trio |
| dart2vcf | Convert DArTag to VCF |
| direct_sum | Direct Sum for Symmetric Matrices |
| gbs | Genotype calls for GBS |
| geno_call | Genotype calls |
| get_pedigree | Generate pedigree |
| G_mat | Genomic relationship matrix |
| GT2DS | Convert GT to ALT allele dosage (DS) |
| GvsA | Plot G vs. A |
| impute | Impute missing data for bi-allelic markers |
| impute_L2H | Impute from low to high density markers by Random Forest |
| impute_LA | Impute from low to high density markers by Linkage Analysis... |
| madc | Multi-Allelic Haplotype Counts for potato DArTag |
| merge_impute | Merge two genotype matrices and impute missing data... |
| predict_NMM | Predict allele dosage |
| readXY | Read SNP array intensity data |
| trim_ped | Trim pedigree |
| update_alias | Update names based on alias |
| vcf2csv | Convert VCF to CSV |
| write_vcf | Create VCFv4.3 file |
