ExcludonFinder identifies overlapping transcription using RNA-seq coverage data.
This approach prioritizes practicality by leveraging RNA-seq data analysis. You can either use your own sequencing data or utilize publicly available datasets, making excludon identification possible across a wide range of bacterial species.
You'll need three main types of files to analyze your excludons. You can either use your own experimental data or download public data.
If you're working with your own genome assembly:
If you're starting from your own RNA-seq raw data, ensure you:
You can download these files from NCBI following these steps:
Public RNA-seq data can be found in NCBI's Sequence Read Archive (SRA):