filterTrack-methods: filterTrack

In sheng-liu/smt: Single Molecule Tracking

Description

methods for filter and trim tracks based on track length.

Usage

filterTrack(trackll,filter=c(min=7,max=Inf)))
trimTrack(trackll,trimmer=c(min=1,max=32)))

Arguments

trackll	Track list output from readDiatrack().
filter	length of track used for filtration. Only tracks pass through filter will be selected.
trimmer	length of track used for trimming. All tracks will be trimmed by the trimmer.

Details

filter is used to filter out tracks that has length within a specified range (default 5~Inf); On the other hand, despite the lengths of tracks, trimmer is used to trim /cutoff all tracks to a specified range (default 1~32).

Value

• trackll filtered or trimmed tracks.

Examples

folder=system.file("extdata","SWR1",package="smt")
trackll=readDiatrack(folder)

trackll.filter=filterTrack(trackll,filter=c(7,Inf))
trackll.trim=trimTrack(trackll,trimmer=c(1,20))

# see the min and max length of the trackll
# trackLength() is a helper function output track length of trackll
lapply(trackLength(trackll),min)
lapply(trackLength(trackll.filter),min)

lapply(trackLength(trackll),max)
lapply(trackLength(trackll.trim),max)

sheng-liu/smt documentation built on May 29, 2019, 9:22 p.m.