getSpliceVariantSeqs: Identifies those entries in argument 'seq.lst' that have...

In asishallab/GeneFamilies: Analyses different properties of gene families

Identifies those entries in argument seq.lst that have identical names as argument seq.names. If for not all members of seq.names entries are found in seq.lst the function tries to match those sequence names that were not found with sequence names in seq.lst by allowing for splice variants. E.g. GeneA is not found in seq.lst, but GeneA.1 might be.

Description

Identifies those entries in argument seq.lst that have identical names as argument seq.names. If for not all members of seq.names entries are found in seq.lst the function tries to match those sequence names that were not found with sequence names in seq.lst by allowing for splice variants. E.g. GeneA is not found in seq.lst, but GeneA.1 might be.

Usage

getSpliceVariantSeqs(seq.lst, seq.names, ...)

Arguments

seq.lst	An instance of base::list holding biological sequences indexed by their unique names (IDs).
seq.names	A character vector of sequence IDs to select from argument seq.lst.
...	Additional arguments to be passed to base::grepl can be e.g. ignore.case = TRUE.

Value

An instance of base::list the subset of argument seq.lst whose entries match the sequence IDs given in seq.names.

asishallab/GeneFamilies documentation built on July 28, 2024, 11:44 a.m.