mergeFastqq: mergeFastqq: Merges two Fastqq object into one.
In wokai/seqTools: Analysis of nucleotide, sequence and quality content on fastq files.
Description
Usage
Arguments
Details
Value
Note
Author(s)
Examples
Description
The contents of two given Fastqq objects are merged together
into one resulting Fastqq object.
Usage
1
mergeFastqq(lhs,rhs)
Arguments
lhs
Fastqq.
rhs
Fastqq.
Details
The data on all FASTQ files in the two incoming objects is merged
together.
The object has the same internal structure as if the data from all FASTQ
files had been collected by a separate call of fastqq on the merged
FASTQ file names of the arguments.
Duplicated probeLabel's are separated by adding of consecutive numbers as
suffix to all probeLabel's.
When lhs and rhs contain kmer-counts for different k
(getK), the function uses the meltDownK mechanism in order to
equalize the k values.
Therefore it is possible to compare samples which were counted with
different k (i.e. k-mer resolution).
Value
S4 Object of class 'Fastqq'.
Note
Note that the meltDownK mechanism is assotiated with a change of
DNA k-mer count values. See 'meltDownK' help (note) for more information.
Author(s)
Wolfgang Kaisers
Examples
1
2
3
4
5
6
basedir<-system.file("extdata",package="seqTools")
setwd(basedir)
#
lhs<-fastqq("g4_l101_n100.fq.gz",k=4,"g4")
rhs<-fastqq("g5_l101_n100.fq.gz",k=4,"g5")
fq<-mergeFastqq(lhs,rhs)
wokai/seqTools documentation built on May 4, 2019, 9:46 a.m.
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Description Usage Arguments Details Value Note Author(s) Examples
Description
The contents of two given Fastqq objects are merged together into one resulting Fastqq object.
Usage
1 | mergeFastqq(lhs,rhs)
|
Arguments
lhs |
|
rhs |
|
Details
The data on all FASTQ files in the two incoming objects is merged
together.
The object has the same internal structure as if the data from all FASTQ
files had been collected by a separate call of fastqq on the merged
FASTQ file names of the arguments.
Duplicated probeLabel's are separated by adding of consecutive numbers as
suffix to all probeLabel's.
When lhs and rhs contain kmer-counts for different k
(getK), the function uses the meltDownK mechanism in order to
equalize the k values.
Therefore it is possible to compare samples which were counted with
different k (i.e. k-mer resolution).
Value
S4 Object of class 'Fastqq'.
Note
Note that the meltDownK mechanism is assotiated with a change of
DNA k-mer count values. See 'meltDownK' help (note) for more information.
Author(s)
Wolfgang Kaisers
Examples
1 2 3 4 5 6 | basedir<-system.file("extdata",package="seqTools")
setwd(basedir)
#
lhs<-fastqq("g4_l101_n100.fq.gz",k=4,"g4")
rhs<-fastqq("g5_l101_n100.fq.gz",k=4,"g5")
fq<-mergeFastqq(lhs,rhs)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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