as_mapping | Convert to a 'mapping' object. |
convert_vcf_to_genfile | Convert VCF data to an 'R/qtl' genotype file. |
get_col_indices | Get column indices of object. |
get_indices | Get indices of object elements. |
get_lod_col_index | Get LOD column index. |
get_lod_col_indices | Get LOD column indices. |
get_qtl_intervals | Get list of QTL intervals. |
get_run_index_list | Get index list of successive runs in a vector. |
infer_map_precision | Infer precision of map positions. |
isBOOL | Test for a single logical value. |
isFALSE | Test for a single 'FALSE' value. |
is_mapping | Test if object is a 'mapping'. |
is_pseudomarker_id | Test for 'R/qtl' pseudomarker IDs. |
is_single_char | Test for a single character. |
is_single_nonnegative_number | Test for a single non-negative number. |
is_single_nonnegative_whole_number | Test for a single non-negative whole number. |
is_single_positive_whole_number | Test for a single positive whole number. |
is_single_probability | Test for a single valid probability. |
is_single_string | Test for a single character string. |
is_valid_id | Test identifier validity. |
is_whole_number | Test for whole numbers. |
load_seq_dict | Load sequence dictionary from file. |
make_geno_matrix | Make genotype matrix from sample and founder genotype data. |
make_snp_marker_ids | Make SNP marker IDs for loci. |
mapping | Create a 'mapping' object. |
mapping_keys | Get keys of a 'mapping' object. |
mapping_values | Get values of a 'mapping' object. |
parse_snp_marker_ids | Parse SNP marker IDs. |
plot_qtl_scanone | Draw a plot of an 'R/qtl' 'scanone' result. |
read_samples_from_vcf | Read sample IDs from a VCF file. |
read_snps_from_vcf | Read SNP genotypes from VCF files. |
remove_na_cols | Remove columns containing only 'NA' values. |
validate_mapping | Validate a 'mapping' object. |
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