read.bin.maqmap.tags: Read MAQ binary alignment map file

Description Usage Arguments Value

View source: R/zroutines.R

Description

Reads in MAQ binary map alignment result file

Usage

1
read.bin.maqmap.tags(filename, read.tag.names = F, fix.chromosome.names = T)

Arguments

filename

MAQ map output file (binary)

read.tag.names

Whether the tag names should be read in

fix.chromosome.names

Whether to remove ".fa" from the end of the sequence names

Value

tags

A vector of 5' tag coordinates, with negative values corresponding to tags mapped to the negative strand.

quality

Number of mismatches

names

Tag names, if read.tag.names was set


hms-dbmi/spp documentation built on Sept. 20, 2020, 7 p.m.