insilicoFASTQ: Construct FASTQ File for In-silico Alignment Experiment

In ramwas: Fast Methylome-Wide Association Study Pipeline for Enrichment Platforms

Description

Creates a FASTQ file with all fragments of fraglength bp long.

Usage

insilicoFASTQ(con, gensequence, fraglength)

Arguments

con	A connection object or a character string naming the output file. If the name ends with ".gz", a compressed file is created. An empty string can be used to output to the console.
gensequence	A string or DNAString of the DNA sequence.
fraglength	Fragment length.

Details

The function a FASTQ file with all fragments of fraglength bp long from the forward strand of the DNA sequence.

Value

Returns a list with CpG coordinates for each genome sequence.

Author(s)

Andrey A Shabalin [e-mail]

Examples

## There are four 4 bp fragments in a 7 basepair sequence:
insilicoFASTQ(con="", gensequence = "ABCDEFG", fraglength=4)

ramwas documentation built on Nov. 8, 2020, 8:24 p.m.