STEM pipeline

STEM specifications

Information


Unique identifier OMICS_06445
Name STEM
Alternative name Short Time-series Expression Miner
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Operating system Unix/Linux
Programming languages Java
Computer skills Advanced
Stability Stable
Maintained Yes

Versioning


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Maintainer


  • person_outline Jason Ernst <>

Publication for Short Time-series Expression Miner

STEM citation

2016
PMCID: 4807561

[…] tests to identify differentially regulated genes. these are followed by clustering methods to classify gene expression profiles into groups of similar co-expression patterns. for instance, short time-series expression miner (stem) tool [4] and weighted gene correlation network analysis (wgcna) [5] utilize a clustering based approach to identify temporal patterns from gene expression […]

STEM institution(s)
Center for Automated and Learning and Discovery, School of Computer Science, Carnegie Mellon University, Pittsburgh, PA, USA

STEM review

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Gary Yung-Chih Lai's avatar image No country

Gary Yung-Chih Lai

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Desktop
Not only microarray, but also RNA-Seq data can be analyzed very well by STEM, if not more than 8 time points.