ChromLabel: ChromLabel

In brengong/ConservationtextmineR:

Description

Requires a data table with a column named "chromosome_name" housing the chromosome names in a numerical format only. substitutes the numeric chromosome values for those in the following format" chr1, chr2, chr3, ect... for use in the getSeq() function.

Usage

ChromLabel(DT)

Arguments

DT	a data table with a column named "chromosome_name" housing the chromosome names in a numerical format only.

Value

A data table containing substituted numeric chromosome values for those in the following format" chr1, chr2, chr3, ect... for use in the getSeq() function.

Author(s)

Brendan Gongol

Examples

Sequence <- c("AAGCTAAGCTAAGCTGCGCAATTTTTGTATTTTGTTTAAACAGAATCCTCAAGGGAACATCATCCTCAGTTCTTTTTGTGTATTAGCTCAGATTTTCCAGCTGTTTTTAAAGCT",
              "CTGTTTCGAGCCTGAATCTCGATCGCTCGCGCTAGACAGCTCGACGCACTTTTCAGCAGGAGCCTG",
              "TCAGCAGATAGCGCTCGATACAGCTCGACAGCTCTTGCTGTATTGTGTG",
              "TTGCTGTATTGTGTGATCCTCGATACAGGTATTTTCTGAGCCTGATAGCTAGCTTTGCTGTATTGTGTG",
              "AAAAAATTTTTTCCCCCCGGGGGG")
gene_symbol <- c("AKT", "PI3K", "SREBP", "FOXO", "ABCA1")
chromosome_name <- c("1", "5", "10", "X", "Y")
chromo <- data.frame(cbind(Sequence, gene_symbol, chromosome_name))
chromo$Sequence <- as.character(chromo$Sequence)
chromo$chromosome_name <- as.character(chromo$chromosome_name)
ChromLabel(chromo)

brengong/ConservationtextmineR documentation built on July 29, 2019, 10:05 a.m.