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Created page with "{{Bioinformatics application |sw summary=GENE-counter is a computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression |bio domain=RNA-Seq..."
{{Bioinformatics application
|sw summary=GENE-counter is a computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression
|bio domain=RNA-Seq,
|created by=Jason Cumbie
|created at=Oregon State University,
|maintained=Yes
|input format=FASTA,
|os=Linux, Mac OS X,
}}
== Description ==
<!-- Describe the application in the space below -->
GENE-counter is a complete pipeline that automates the process of enumerating, aligning, and assigning sequences to generate count data to simplify high-throughput sequence analysis. To analyze data for differential gene expression, GENE-counter can be run with any one of three statistics packages that are based on variations of the negative binomial distribution. The default method is a new and simple statistical test we developed based on an over-parameterized version of the negative binomial distribution. GENE-counter also includes three different methods for assessing differentially expressed features for enriched gene ontology (GO) terms.
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{{References}}
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|sw summary=GENE-counter is a computational pipeline for analyzing RNA-Sequencing (RNA-Seq) data for differential gene expression
|bio domain=RNA-Seq,
|created by=Jason Cumbie
|created at=Oregon State University,
|maintained=Yes
|input format=FASTA,
|os=Linux, Mac OS X,
}}
== Description ==
<!-- Describe the application in the space below -->
GENE-counter is a complete pipeline that automates the process of enumerating, aligning, and assigning sequences to generate count data to simplify high-throughput sequence analysis. To analyze data for differential gene expression, GENE-counter can be run with any one of three statistics packages that are based on variations of the negative binomial distribution. The default method is a new and simple statistical test we developed based on an over-parameterized version of the negative binomial distribution. GENE-counter also includes three different methods for assessing differentially expressed features for enriched gene ontology (GO) terms.
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{{Links}}
{{References}}
{{Link box}}
