ighvDistance: Germline set alleles distance
In piglet: Program for Inferring Immunoglobulin Allele Similarity Clusters and Genotypes
View source: R/allele_cluster.R
ighvDistance R Documentation
Germline set alleles distance
Description
Calculates the distance between pairs of alleles based on their aligned germline sequences.
The function assume the germline set sequence are at an even length.
If not the function will pad the sequences with to the longest sequence length with Ns.
Usage
ighvDistance(germline_set, AA = FALSE)
Arguments
germline_set
A character list of the IMGT aligned IGHV allele sequences. See details for curating options.
AA
Logical (FALSE by default). If to calculate the distance based on the amino acid sequences.
Details
The aligned IMGT IGHV allele germline set can be download from the IMGT site https://www.imgt.org/ under the section genedb.
Value
A matrix of the computed distances between the alleles pairs.
piglet documentation built on April 12, 2025, 1:27 a.m.
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View source: R/allele_cluster.R
| ighvDistance | R Documentation |
Germline set alleles distance
Description
Calculates the distance between pairs of alleles based on their aligned germline sequences. The function assume the germline set sequence are at an even length. If not the function will pad the sequences with to the longest sequence length with Ns.
Usage
ighvDistance(germline_set, AA = FALSE)
Arguments
germline_set |
A character list of the IMGT aligned IGHV allele sequences. See details for curating options. |
AA |
Logical (FALSE by default). If to calculate the distance based on the amino acid sequences. |
Details
The aligned IMGT IGHV allele germline set can be download from the IMGT site https://www.imgt.org/ under the section genedb.
Value
A matrix of the computed distances between the alleles pairs.
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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