RSeqFlow
A comprehensive R pipeline for processing RNA-Seq datasets from count files (or tables) in non-model organisms comprising:
- Read/construct a count table from RNA-seq mappings
- Quality control and gene filtering
- Normalisation and biologically relevant differential expression
- Correlation analyses for clustering
- Co-expression networks, including hubs and subgraphs
- Profiling outstanding genes.
Info
Members (researchers): M. Gonzalo Claros Díaz
Research Groups: Integrative Bioinformatics for Plant Stres (iBIP)
Contact Email: claros@uma.es
Tool Repository: https://github.com/mgclaros/RSeqFlow
Documentation: https://github.com/mgclaros/RSeqFlow/blob/main/README.md
Publications DOI: doi:10.3390/plants12162894.
Analysis packages (R, Python, etc.), Applications of Computational Biology, Bioinformatics Software and Tools, Data Analysis, Expression Profiling, Plant genomics, RNA Sequencing (RNA-seq), Transcriptomics
Technical details
Type of application
- R/python package
Software compatibility
- Linux
- Mac
- Windows
Hardware requirements
- Nothing special
Programming language
- BASH
- R
Type of containerization
- None
Wrapper type
- None
Input file formats
- csv
- tsv
Output file formats
- html
- tsv