nonOverlapRNAseq_solo: Annotating the Non-Overlapping genes with RNAseq expression
In VilainLab/Nanotator: Next generation structural variant annotation and classification
Description
Usage
Arguments
Value
Examples
View source: R/RNASEQ_Analysis_solo_SVMerge_SE.r
Description
Annotating the Non-Overlapping genes with RNAseq expression
Usage
1
nonOverlapRNAseq_solo(gnsNonOverlap, SVID, RNASeqData, pattern_Proband = NA)
Arguments
gnsNonOverlap
character. Vector containing non-overlapping genes.
SVID
character. SV Index ID.
RNASeqData
dataFrame. RNAseq data with gene names.
pattern_Proband
character. Pattern for proband.
Value
Dataframe containing TPM read counts of overlapping genes.
Examples
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RNASeqDir = system.file("extdata", package="nanotatoR")
returnMethod="dataFrame"
datRNASeq <- RNAseqcombine_solo(RNASeqDir = RNASeqDir,
returnMethod = returnMethod)
gnsNonOverlap <- c("DDX11L1", "MIR1302-2HG", "OR4G4P")
SVID = 397
datgnnonovrlap <- nonOverlapRNAseq_solo(gnsNonOverlap = gnsNonOverlap,
SVID = SVID, RNASeqData = datRNASeq,
pattern_Proband = "*_P_*")
VilainLab/Nanotator documentation built on Oct. 9, 2021, 8:59 p.m.
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Description Usage Arguments Value Examples
View source: R/RNASEQ_Analysis_solo_SVMerge_SE.r
Description
Annotating the Non-Overlapping genes with RNAseq expression
Usage
1 | nonOverlapRNAseq_solo(gnsNonOverlap, SVID, RNASeqData, pattern_Proband = NA)
|
Arguments
gnsNonOverlap |
character. Vector containing non-overlapping genes. |
SVID |
character. SV Index ID. |
RNASeqData |
dataFrame. RNAseq data with gene names. |
pattern_Proband |
character. Pattern for proband. |
Value
Dataframe containing TPM read counts of overlapping genes.
Examples
1 2 3 4 5 6 7 8 9 | RNASeqDir = system.file("extdata", package="nanotatoR")
returnMethod="dataFrame"
datRNASeq <- RNAseqcombine_solo(RNASeqDir = RNASeqDir,
returnMethod = returnMethod)
gnsNonOverlap <- c("DDX11L1", "MIR1302-2HG", "OR4G4P")
SVID = 397
datgnnonovrlap <- nonOverlapRNAseq_solo(gnsNonOverlap = gnsNonOverlap,
SVID = SVID, RNASeqData = datRNASeq,
pattern_Proband = "*_P_*")
|
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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