lookupAlignment: Show alignment in human readable format.
In valenlab/amplican: Automated analysis of CRISPR experiments

lookupAlignment

R Documentation

Show alignment in human readable format.

Description

Prints alignments in blast-like style for human examination.

Usage

lookupAlignment(x, ID, read_id = 1)

Arguments

`x`	(AlignmentsExperimentSet)
`ID`	(string) Experiment Identifier
`read_id`	(numeric) Read Identifier. Reads are sorted by frequency. Defaults to 1, most abundant read.

Value

(print to view)

Examples

# load example object
file_path <- system.file("extdata", "results", "alignments",
                         "AlignmentsExperimentSet.rds", package = "amplican")
aln <- readRDS(file_path)
# look at most frequent reads aligned from experiment ID_1
lookupAlignment(aln, "ID_1")

valenlab/amplican documentation built on Jan. 28, 2024, 5:10 a.m.