Man pages for tigger
Infers Novel Immunoglobulin Alleles from Sequencing Data
| AIRRDb | Example human immune repertoire data |
| cleanSeqs | Clean up nucleotide sequences |
| findNovelAlleles | Find novel alleles from repertoire sequencing data |
| findUnmutatedCalls | Determine which calls represent an unmutated allele |
| generateEvidence | Generate evidence |
| genotypeFasta | Return the nucleotide sequences of a genotype |
| GermlineIGHV | Human IGHV germlines |
| getMutatedPositions | Find the location of mutations in a sequence |
| getMutCount | Determine the mutation counts from allele calls |
| getPopularMutationCount | Find mutation counts for frequency sequences |
| inferGenotype | Infer a subject-specific genotype using a frequency method |
| inferGenotypeBayesian | Infer a subject-specific genotype using a Bayesian approach |
| insertPolymorphisms | Insert polymorphisms into a nucleotide sequence |
| plotGenotype | Show a colorful representation of a genotype |
| plotNovel | Visualize evidence of novel V alleles |
| readIgFasta | Read immunoglobulin sequences |
| reassignAlleles | Correct allele calls based on a personalized genotype |
| SampleDb | Example human immune repertoire data |
| SampleGenotype | Example genotype inferrence results |
| SampleGermlineIGHV | Example Human IGHV germlines |
| SampleNovel | Example novel allele detection results |
| selectNovel | Select rows containing novel alleles |
| sortAlleles | Sort allele names |
| subsampleDb | Subsample repertoire |
| tigger | tigger |
| tigger-package | tigger: Infers Novel Immunoglobulin Alleles from Sequencing... |
| updateAlleleNames | Update IGHV allele names |
| writeFasta | Write to a fasta file |
