summary.LFRset: Summary statistics on an LFRset Object

In chedonat/DigitalPicoTools: DIGITAL ANALYSIS OF PICOGRAM QUANTITIES OF DNA

Description

This is a generic function to compute the common summary statistic on the Length, Average coverage and the numbe rof reads of an LFR set object

Usage

summary.LFRset(object)

Arguments

x	an LFRset object containing the list of Long Fragment Reads

Value

The five statistics summary (Min, Max, Mean, Median, 1st Quart, 3rd Quart) for the Length, the Average Coverage and the Number of Reads of the LFRs.

See Also

getBreadthGenomeCoverage, getLFRStats, getLFRset, getLFRStatsPerWell, getN50

Examples

LFR_11152Tissue_10k_file<-system.file('extdata',
      'D1000_10k_allfragments.tsv.gz',package = 'DigitalPicoTools')
D1000_10k_11152Tissue_LFR=read.table(file=LFR_11152Tissue_10k_file)
D1000_10k_11152Tissue_LFRset=LFRset(Table=D1000_10k_11152Tissue_LFR)
summary(D1000_10k_11152Tissue_LFRset)
#  Summary on the LFRset object
#
# Fragments Length
# Min. 1st Qu.  Median    Mean 3rd Qu.    Max.
# 10000   12340   15800   18700   21920  150200
#
# Fragments Average Coverage
# Min. 1st Qu.  Median    Mean 3rd Qu.    Max.
# 0.2747  0.9621  1.3730  1.7560  2.1050 28.9100
#
# Fragments Nbreads
# Min. 1st Qu.  Median    Mean 3rd Qu.    Max.
# 12.0    53.0    90.0   154.4   174.0  5240.0

chedonat/DigitalPicoTools documentation built on May 13, 2019, 3:39 p.m.