Man pages for gschofl/HLAsim
Simulate allelic dropouts in HLA data
| allele | Extract an allele |
| cdfA | cdfA and cdfB |
| clean_hla_data | Remove low resolution four-digit codes and cases of unknown... |
| concentration | Template DNA concentrations |
| disambiguate_codes | Disambiguate NMDP and G codes |
| dkms_dna_concentration | Extract DNA concentration for LIMS_DONOR_ID from NGSREP |
| dna_version_id | Extract the DNA Version ID |
| do_inject | Inject errors |
| eag_allele | Class: eag_allele |
| eag_numbers | Class: eag_numbers |
| eag_status | How many eags do we find on exons 2 and 3? |
| eag_table | Class: eag_tbl |
| eag_tables | EAG tables |
| encode_ambiguities | Encode subtypes to G or NMDP codes |
| errors | Extract errors |
| exon | Extract an exon |
| expand_ambiguity_codes | Expand ambiguity codes |
| expected_genotype_frequencies | Calculate expected genotype frequencies. |
| gene | Extract the gene name |
| geno_data | Genotyping results for class II HLA genes. |
| geno_table | Class: geno_table |
| get_testdata | Retrieve testing data from ngsrep for a gene |
| g_table | Class: g_tbl |
| gtf_table | Extract table of genotype frequencies |
| gtf_table.HLA | Class: gtf_tbl |
| HLA | Genotyping data generated at DKMS Life Science Lab. |
| HLAsim | HLAsim |
| inject_errors | Inject errors into a sample of genotypes. |
| lookup_list | Class: lookup_list |
| lookup_table | Class: lookup_table |
| loose_eag | Loose an EAG |
| make_disambiguator | Make a function that disambiguates report alleles |
| make_encoder | Make a function that encodes eag alleles |
| make_genotype_sampler | Generate a genotype resampling function. |
| make_mapper | Generate a mapping function |
| make_test_instance | Make a tester |
| map_eag_allele | Map eag numbers to an eag allele |
| map_genotype_frequencies | Map observed/expected genotype frequencies to sampled... |
| mapper | Extract mapper function |
| map_rep_allele | Map an eag allele to a report allele |
| nextype_basis_id | Extract the NeXtype Basis ID |
| nmdp_table | Class: nmdp_tbl |
| remapper | Extract remapper function |
| rep_allele | Class: rep_allele |
| sample_dna_concentration | Extract a random sample of DNA concentrations. |
| samples | Extract samples |
