getGermlineDistance: Function to calculate distance from germline for all...
In Fraternalilab/BrepPhylo: BrepPhylo: R package for phylogenetic analysis of B cell repertoire
View source: R/germlineDistances.R
getGermlineDistance R Documentation
Function to calculate distance from germline for all observations in a given lineage tree
Description
Read a newick tree to calculate distance-from-germline. Assume germline is in the tree, with name beginning with 'IG.V' where '.' can be any character.
Usage
getGermlineDistance(tree_file)
Arguments
tree_file
Character, filename of the phylogenetic tree in newick format.
Value
A data.frame with two columns with the following names:
- SeqID
Character, Identifier of sequence given in the tree file.
- distFromGermline
Numeric, distance from the identified germline (i.e. total lengths of edges traversed in order to get from the germline to the given sequence.
Fraternalilab/BrepPhylo documentation built on Jan. 3, 2025, 10:03 a.m.
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View source: R/germlineDistances.R
| getGermlineDistance | R Documentation |
Function to calculate distance from germline for all observations in a given lineage tree
Description
Read a newick tree to calculate distance-from-germline. Assume germline is in the tree, with name beginning with 'IG.V' where '.' can be any character.
Usage
getGermlineDistance(tree_file)
Arguments
tree_file |
Character, filename of the phylogenetic tree in newick format. |
Value
A data.frame with two columns with the following names:
- SeqID
Character, Identifier of sequence given in the tree file.
- distFromGermline
Numeric, distance from the identified germline (i.e. total lengths of edges traversed in order to get from the germline to the given sequence.
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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