tappAS
tappAS is a free Java GUI application designed for the functional analysis of RNA-Seq data at the isoform level, focusing on alternative splicing and UTR processing. It supports project-based workflows, requiring an experimental design file, a transcript-level expression matrix, and an annotation file. The application offers extensive data analysis tools and provides comprehensive interactive data visualization options. tappAS is compatible with most modern computers and includes customizable data tables, export features, and user-friendly GUI elements.
Info
Members (researchers): Ana Conesa
Research Groups: Genomics of Gene Expression
Contact Email: conesalab@gmail.com
Tool Repository: https://github.com/ConesaLab/tappAS
Documentation: https://app.tappas.org/overview/
Publications DOI: doi:10.1186/s13059-020-02028-w
Annotation tools, Biological Ontologies, Data Visualization, Desktop application, Experimental design, Expression Profiling, Frequentist analysis, Functional annotation, Gene regulatory networks, Genomic Annotation, Multivariate statistics, Pathway analysis, RNA Sequencing (RNA-seq), Transcriptomics
Technical details
Type of application
- Desktop application
Software compatibility
- Linux
- Mac
- Windows
Hardware requirements
- Minimum of 20 GBs of available unused disk space
- Minimum of 4 cores (multi-core CPU or single core CPUs)
- Minimum of 8 GBs of memory
Programming language
- HTML
- Java
- mySQL
- R
Type of containerization
- None
Wrapper type
- None
Input file formats
- csv
- gff
- gtf
Output file formats
Compatibility with other tools
- IsoAnnot (IsoAnnotLite)
- SQANTI3