JuncSeq

Extract splice junction sequences (from Ensembl format genomes)

Make Weblogo plots

Usage

Clone the repository

git clone https://github.com/duopeng/JuncSeq

Go the repository directory

cd JuncSeq

Create conda environment and activate it

conda create -y -n JuncSeq python=3.10
conda activate JuncSeq

Install required packages

pip install -r requirements.txt

Run tests to verify installation

python run_tests.py

You should see the following output:

Use the following notebook to extract splice junction sequences and make Weblogo plots

JuncSeq.ipynb

Please make sure the "GenomeBuild" and "species" match, see the mouse example below: