Man pages for SNPfiltR
Interactively Filter SNP Datasets
| assess_missing_data_pca | Vizualise how missing data thresholds affect sample... |
| assess_missing_data_tsne | Vizualise how missing data thresholds affect sample... |
| distance_thin | Filter a vcf file based on distance between SNPs on a given... |
| filter_allele_balance | Filter out heterozygous genotypes failing an allele balance... |
| filter_biallelic | Remove SNPs with more than two alleles |
| hard_filter | Hard filter a vcf file by depth and genotype quality (gq) |
| max_depth | Vizualise and filter based on mean depth across all called... |
| min_mac | Vizualise, filter based on Minor Allele Count (MAC) |
| missing_by_sample | Vizualise missing data per sample, remove samples above a... |
| missing_by_snp | Vizualise missing data per SNP, remove SNPs above a missing... |
| popmap | Popmap for example scrub-jay vcfR file |
| SNPfiltR | SNPfiltR: A package for interactively visualizing and... |
| vcfR.example | Example scrub-jay vcfR file |
