PoissonSeq pipeline

PoissonSeq specifications

Information


Unique identifier OMICS_01950
Name PoissonSeq
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
License GNU General Public License version 3.0
Computer skills Advanced
Version 1.1.2
Stability Stable
Requirements combinat, splines
Source code URL https://cran.r-project.org/src/contrib/PoissonSeq_1.1.2.tar.gz
Maintained Yes

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Documentation


Maintainers


  • person_outline Jun Li <>
  • person_outline Daniela Witten <>
  • person_outline Iain Johnstone <>
  • person_outline Robert Tibshirani <>

Publication for PoissonSeq

PoissonSeq IN pipeline

2014
PMCID: 4072957
PMID: 24887547
DOI: 10.1186/gb-2014-15-5-r71

[…] using package sam 2.0 [13]. briefly, the counts from the data were transformed using anscombe transformation [37] to stabilize variance, and then normalized using sequencing depths estimated by poissonseq [38]. the resulting normalized data are roughly gaussian-distributed and the values are comparable across samples [12], resembling microarray data. this dataset was used to perform […]

PoissonSeq institution(s)
Department of Statistics, Stanford University, Stanford, CA, USA; Department of Biostatistics, University of Washington, Seattle, WA, USA; Department of Health Research & Policy, and Statistics, Stanford University, Stanford, CA, USA
PoissonSeq funding source(s)
Supported by National Science Foundation (DMS-9971405) and National Institutes of Health (N01-HV-28183, BIB R01EB1988).

PoissonSeq review

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Andrew Miller

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Desktop
A good method to analyze RNA-seq data based on Poisson goodness-of-fit statistic.