SeqGSEA
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Application data |
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| Created by | Xi Wang |
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| Biological application domain(s) | Biomedical Sciences, Genomics, RNA-seq |
| Principal bioinformatics method(s) | Statistical calculation, Functional analysis, Functional enrichment |
| Technology | Any |
| Created at | The University of Newcastle |
| Maintained? | Yes |
| Input format(s) | BAM, SAM |
| Output format(s) | Tab separated |
| Software features | integrative analysis |
| Programming language(s) | R |
| Licence | GPL (>= 3) |
| Operating system(s) | any |
Summary: Gene Set Enrichment Analysis (GSEA) of RNA-Seq Data: integrating differential expression and splicing
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Description
The package generally provides methods for gene set enrichment analysis of high-throughput RNA-Seq data by integrating differential expression and splicing. It uses negative binomial distribution to model read count data, which accounts for sequencing biases and biological variation. Based on permutation tests, statistical significance can also be achieved regarding each gene's differential expression and splicing, respectively.
Links
References
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