RNAseqPS specifications

Information


Unique identifier OMICS_07222
Name RNAseqPS
Alternative name RnaSeqSampleSize
Interface Web user interface
Restrictions to use None
Programming languages R
Computer skills Basic
Maintained No

Documentation


Maintainer


This tool is not maintained anymore.

Information


Unique identifier OMICS_07222
Name RNAseqPS
Alternative name RnaSeqSampleSize
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Windows
Programming languages R
License GNU General Public License version 2.0
Computer skills Advanced
Version 1.12.0
Stability Stable
Requirements
BiocStyle, edgeR, R(>=2.10), biomaRt, knitr, KEGGREST, matlab, RnaSeqSampleSizeData, heatmap3, Rcpp(>=0.11.2)
Maintained Yes

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Versioning


No version available

Documentation


Maintainer


  • person_outline Shilin Zhao

Publications for RnaSeqSampleSize

RNAseqPS citations

 (2)
library_books

Power analysis for RNA Seq differential expression studies

2017
BMC Bioinformatics
PMCID: 5415728
PMID: 28468606
DOI: 10.1186/s12859-017-1648-2

[…] ld test and likelihood ratio test (LRT). Li et al. [] proposed an exact test method for calculating sample size at a single gene level or the marginal level, which is implemented in a web tool called RNAseqPS [] and an R package called RnaSeqSampleSize. Other studies have been published for sample size calculation and power estimation at a data set level by evaluating the proportion of true discov […]

library_books

Transcriptome sequencing identified hub genes for hepatocellular carcinoma by weighted gene co expression analysis

2016
Oncotarget
PMCID: 5122405
PMID: 27220887
DOI: 10.18632/oncotarget.9555

[…] genes. For eight differentially expressed lncRNA transcripts, six up-regulated and two down-regulated genes were identified.We estimated the statistical power for detecting significantly DEGs using ‘RnaSeqSampleSize’ [] and ‘ssizeRNA’ []. The genes with minimun read counts > 10 across all individuals (n = 11,076) genes was used. We also estimated the distributions of gene read count and dispersio […]

RNAseqPS institution(s)
Center for Quantitative Sciences, Vanderbilt University, Nashville, TN, USA; Department of Statistics, National Cheng Kung University, Tainan, Taiwan

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