lung: Lung cancer data
In zhanghfd/PLNseq: PLNseq: A multivariate Poisson lognormal distribution for high-throughput correlated RNA-sequencing read count data
Description
The data are from a study of the lung cancer. Six patients provided tissue samples and normal samples besides the lung tissues. The read counts were summarized by RefSeq transcript, and only those transcripts with at least 50 aligned reads for at
least one tissue in each condition were provided in the table. RefSeq identifiers were mapped to the latest official gene symbols by following the user guide of the Bioconductor package ‘edgeR’ using the
Bioconductor annotation package ‘org.Hs.eg.db’ (version 2.7.1). Those RefSeq identifiers not in the database were discarded, and each gene was represented by the RefSeq transcript with the
greatest number of exons and the other transcripts were removed. Altogether 11,597 transcripts (genes) were kept.
Usage
1
Format
A data frame with 11,597 observations on the following 13 variables.
nameOfGeneGene name
N4Read count for normal sample of patient 4
T4Read count for normal sample of patient 4
N12Read count for normal sample of patient 12
T12Read count for tumor sample of patient 12
N13Read count for normal sample of patient 13
T13Read count for tumor sample of patient 13
N14Read count for normal sample of patient 14
T14Read count for tumor sample of patient 14
N15Read count for normal sample of patient 15
T15Read count for tumor sample of patient 15
N16Read count for normal sample of patient 16
T16Read count for tumor sample of patient 16
zhanghfd/PLNseq documentation built on May 4, 2019, 10:16 p.m.
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Description
The data are from a study of the lung cancer. Six patients provided tissue samples and normal samples besides the lung tissues. The read counts were summarized by RefSeq transcript, and only those transcripts with at least 50 aligned reads for at least one tissue in each condition were provided in the table. RefSeq identifiers were mapped to the latest official gene symbols by following the user guide of the Bioconductor package ‘edgeR’ using the Bioconductor annotation package ‘org.Hs.eg.db’ (version 2.7.1). Those RefSeq identifiers not in the database were discarded, and each gene was represented by the RefSeq transcript with the greatest number of exons and the other transcripts were removed. Altogether 11,597 transcripts (genes) were kept.
Usage
1 |
Format
A data frame with 11,597 observations on the following 13 variables.
nameOfGeneGene name
N4Read count for normal sample of patient 4
T4Read count for normal sample of patient 4
N12Read count for normal sample of patient 12
T12Read count for tumor sample of patient 12
N13Read count for normal sample of patient 13
T13Read count for tumor sample of patient 13
N14Read count for normal sample of patient 14
T14Read count for tumor sample of patient 14
N15Read count for normal sample of patient 15
T15Read count for tumor sample of patient 15
N16Read count for normal sample of patient 16
T16Read count for tumor sample of patient 16
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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