SATAY pipeline at Delft :)
Status of the project
Overview of the pipeline functions
Flowchart of the pipeline
What is SATAY
How to use the pipeline in the docker container
Code for the bash GUI
Python scripts
Cleaning bed and wig files
Transposon profile for the whole genome
Transposon profile for a chromosome of interest
Create a scatterplot for all genes and all essential genes.
Volcano plots to two different libraries
Searching for genomic features of transposition events
Build your own docker container with ours satay pipeline
Contributing guidelines for developers
Code of Conduct
Tutorials
Tutorial-1 : How to run the transposonmapper python package in a specific environment.
Tutorial-2 : How to clean the wig and bed files.
Tutorial-3: Visualize the insertions and reads per gene throughout the genome
Tutorial-4: Zoom in into the chromosomes
Tutorial-5: Volcano plots
repository
open issue
Index