sort_pattern: pattern sorting a vector

In drmjc/mjcbase: General helper functions for dealing with \R objects/data types

Description

sort a character vector based on the presence of multiple patterns. sort only gives you alphanumeric sorting, and sometimes you want to sort on patterns within the words. Eg given a character vector of filepaths containing label suffixes, or structured components, you may want to reorder so that the keywords are all grouped. See examples.

Usage

sort_pattern(x, patterns, ...)

Arguments

x	a character vector, or a vector which can be converted to one.
patterns	a character vector of patterns. see grep.
...	currently ignored.

Value

a character vector representation of x, with the elements reodered. If no elements in x match any pattern then these will be at the end. The order of elements within those that match a pattern are the same as in x. The patterns are ordered, such that once an element has matched a pattern, it will not be re-sorted.

TODO

Implement decreasing and na.last like sort

Author(s)

Mark Cowley, 2013-09-25

Examples

a <- c("simple-AAA-100", "simple-AAA-200", "simple-AAA-300", "xyz-BBB-100", "xyz-BBB-200", "xyz-BBB-300")
sort_pattern(a, c("300", "200", "100"))
sort_pattern(a, c("xyz", "simple"))
sort_pattern(a, c("xyz", "AAA"))
sort_pattern(a, c("xyz", "AAA", "300")) # the last term has no effect

#
# real world example.
#
a <- c("CCDS_CDS_hg19_uniq", "CCDS_exons_hg19_uniq", "CDSgencodeV16_uniq", 
"knownGene_CDS_hg19_uniq", "knownGene_exons_hg19_uniq", "knownGene_UTR_hg19_uniq", 
"LncRNAgencodeV16_uniq", "miRNAgencodeV16pluslength_uniq", "PsuedoGenesgencodeV16_uniq", 
"refGene_CDS_hg19_uniq", "refGene_exons_hg19_uniq", "refGene_UTR_hg19_uniq", 
"SnoRNAgencodeV16plusLength_uniq", "SnRNAgencodeV16plusLength_uniq", 
"start_codengencodeV16_uniq", "stop_codengencodeV16_uniq", "UnprocessedPsudoGenegencodeV16_uniq", 
"UTRgencodeV16_uniq")
sort_pattern(a, c("gencode", "exons", "CDS", "UTR"))

drmjc/mjcbase documentation built on May 15, 2019, 2:27 p.m.