tileMetrics: Get Tile Metrics

In ploverso-pgdx/savR: Parse and analyze Illumina SAV files

Description

Returns the Tile Metrics SAV data.

Usage

tileMetrics(project)

## S4 method for signature 'savProject'
tileMetrics(project)

Arguments

project

SAV project

Details

Metrics for each tile are encoded in the following format:

cluster density:	100
PF cluster density:	101
number of clusters:	102
number of PF clusters:	103
phasing for read N:	(200 + (N - 1) * 2)
prephasing for read N:	(201 + (N - 1) * 2)
percent aligned for read N:	(300 + N - 1)
control lane:	400

lane:

Lane number

tile:

Tile ID

code:

Code described above

value:

Value for code key

Value

sorted data.frame of tile metrics

References

Codes for Tile Metrics were obtained from the Python Illuminate package:
https://bitbucket.org/invitae/illuminate

Examples

example(savR)
colnames(tileMetrics(fc))

ploverso-pgdx/savR documentation built on May 25, 2019, 8:22 a.m.