sample_dataset: sample_dataset
In PAIRADISE: PAIRADISE: Paired analysis of differential isoform expression
Description
The CEU dataset was generated by analyzing the allele-specific
alternative splicing events in the GEUVADIS CEU
data. Allele-specific reads were mapped onto alternative splicing
events using rPGA (version 2.0.0). Then the allele-specific bam
files mapped onto the two haplotypes are merged together to detect
alternative splicing events using rMATS (version 3.2.5)16.
The LUSC dataset was generated by analyzing the tumor versus
adjacent control samples from TCGA LUSC RNA-seq data.
Usage
1
2
3
4
5
Format
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
PAIRADISE documentation built on Nov. 8, 2020, 8:22 p.m.
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Description
The CEU dataset was generated by analyzing the allele-specific alternative splicing events in the GEUVADIS CEU data. Allele-specific reads were mapped onto alternative splicing events using rPGA (version 2.0.0). Then the allele-specific bam files mapped onto the two haplotypes are merged together to detect alternative splicing events using rMATS (version 3.2.5)16.
The LUSC dataset was generated by analyzing the tumor versus adjacent control samples from TCGA LUSC RNA-seq data.
Usage
1 2 3 4 5 |
Format
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
The dataset has 7 columns, arranged as follows:
- ExonID
Column 1 contains the ID of the alternative splicing events.
- I1
Column 2 contains counts of isoform 1 corresponding to the first group.
- S1
Column 3 contains counts of isoform 2 corresponding to the first group.
- I2
Column 4 contains counts of isoform 1 corresponding to the second group.
- S2
Column 5 contains counts of isoform 2 corresponding to the second group.
- I_len
Column 6 contains the effective length of isoform 1.
- S_len
Column 7 contains the effective length of isoform 2.
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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