prime3_PRP8_50: 3'UTR splicing data of 50 genes detected in the knockdowned...
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prime3_PRP8_50 R Documentation
3'UTR splicing data of 50 genes detected in the
knockdowned PRP8 cell line
Description
Splicing events occurring in 3'UTR of 50 genes
were detected in the knockdowned PRP8 cell line.
Usage
data("prime3_PRP8_50")
Format
A data frame with 50 observations on the following 24 variables.
chr a factor with levels
stranda factor with levels
isoforma factor with levels
Genea factor with levels
exon_const_starta numeric vector
exon_const_enda numeric vector
exon_alt1_starta numeric vector
exon_alt1_enda numeric vector
exon_alt2_starta numeric vector
exon_alt2_enda numeric vector
Siha_Ctl_I_S3a numeric vector
Siha_Ctl_II_S7a numeric vector
Siha_Ctl_III_S11a numeric vector
PRP8_I_S2a numeric vector
PRP8_II_S6a numeric vector
PRP8_III_S10a numeric vector
tvaluea numeric vector
rhoa numeric vector
pvaluea numeric vector
adjpa numeric vector
wa numeric vector
Xa numeric vector
X.1a numeric vector
X.2a numeric vector
Details
This dataset is an example for annotation of genes within
which splicing events occurring in 3'UTR were detected by
spladder-NBBttest in knockdowned PRP8 cell line. Gene
information columns are assigned to "chr","Gene", "isoform",
"exon_const_start" and "exon_const_end" that are start
and end positions of constituted exons and "exon_alt1_start"
and "exon_alt1_end" that are start and end positions of
alternative exons. Count data of RNA reads are assigned
to three replicate control columns (Siha_Ctl_I_S3,II-S7,
III_S11) and three replicate knokdowned PRP8 columns
(PRP8_I_S2,II_S6 and III_S10). The tvalue is t-statistic,
rho is gene-wise variable, pvalue is p-value for t-statistic,
w is ω,a threshold for rho, FDR (X.1)is false
discovery rate with α= 0.05, selection (X.2)= 1
if pvalue < FDR, 0, otherwise.
Examples
data(prime3_PRP8_50)
NBBttest documentation built on May 30, 2022, 1:05 a.m.
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| prime3_PRP8_50 | R Documentation |
3'UTR splicing data of 50 genes detected in the knockdowned PRP8 cell line
Description
Splicing events occurring in 3'UTR of 50 genes were detected in the knockdowned PRP8 cell line.
Usage
data("prime3_PRP8_50")
Format
A data frame with 50 observations on the following 24 variables.
chra factor with levels
stranda factor with levels
isoforma factor with levels
Genea factor with levels
exon_const_starta numeric vector
exon_const_enda numeric vector
exon_alt1_starta numeric vector
exon_alt1_enda numeric vector
exon_alt2_starta numeric vector
exon_alt2_enda numeric vector
Siha_Ctl_I_S3a numeric vector
Siha_Ctl_II_S7a numeric vector
Siha_Ctl_III_S11a numeric vector
PRP8_I_S2a numeric vector
PRP8_II_S6a numeric vector
PRP8_III_S10a numeric vector
tvaluea numeric vector
rhoa numeric vector
pvaluea numeric vector
adjpa numeric vector
wa numeric vector
Xa numeric vector
X.1a numeric vector
X.2a numeric vector
Details
This dataset is an example for annotation of genes within which splicing events occurring in 3'UTR were detected by spladder-NBBttest in knockdowned PRP8 cell line. Gene information columns are assigned to "chr","Gene", "isoform", "exon_const_start" and "exon_const_end" that are start and end positions of constituted exons and "exon_alt1_start" and "exon_alt1_end" that are start and end positions of alternative exons. Count data of RNA reads are assigned to three replicate control columns (Siha_Ctl_I_S3,II-S7, III_S11) and three replicate knokdowned PRP8 columns (PRP8_I_S2,II_S6 and III_S10). The tvalue is t-statistic, rho is gene-wise variable, pvalue is p-value for t-statistic, w is ω,a threshold for rho, FDR (X.1)is false discovery rate with α= 0.05, selection (X.2)= 1 if pvalue < FDR, 0, otherwise.
Examples
data(prime3_PRP8_50)
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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