XString2KmerDT: XString2KmerDT

In UriNeri/NeriMisc: Neri's Miscellaneous helper functions

XString2KmerDT

Description

Compute kmer frequency/count per input StringSet. TODO: replace with Biostrings::oligonucleotideFrequency

Usage

XString2KmerDT(
  infaa = BS_all_mot_sssp,
  abcde = c("H", "E", "C"),
  k = 3,
  out_probablity = F,
  input_was = "name_mot"
)

Arguments

infaa	input xstring/bstring/dnaStringSet...
abcde	Alpha-Beit of input strings
k	kmer to use (numeric)
out_probablity	Should output be normalized as per-sequence probality?
input_was	Column name for the IDs

Value

data.frame

See Also

Other BString_functions: AAcoor2NAcoor_dFAST(), AAcoor2NAcoor_df(), AAcoor2NAcoor(), DF2XString(), Trim2Core2(), XSDNARedunFilter(), XString2DF()

Examples

XString2KmerDT

UriNeri/NeriMisc documentation built on Aug. 13, 2022, 4:37 p.m.