de.STAIR RNA-Seq scripts¶
Place for some of our scripts.
For an introduction to git you might want to explore a Github tutorial
Feel free to contribute, fork or add! For editing mark down, please see cheat sheet
Source code¶
R code written and executed in RStudio (R version 3.4.3)
Python code written in Spyder3 (Python version 3.6)
Unix stuff executed with (Ubuntu 16)
de.STAIR¶
See project details at de.STAIR project page
Tools¶
- Demultiplexing flexbar
- Quality check with good old fastqc or qualimap
- Pre-processing fastx - alternatively trimmomatic or trimgalore
- Mapping kallisto
- DE Analysis and statistics with kallisto sub-sequent tool sleuth