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Welcome to the RNA_Editing_Detection_Pipeline wiki!

Usage:

Retrieve Fastq Files from SRA

1. Create a txt file containing a list of SRA accession numbers.
2. Run get_SRA_data.py to download data

Parameters:

• -a or --acc_list: path to file containing list of SRA accession numbers
• -o or --output: path to output directory

Example:

nohup python3 get_SRA_data.py -a acc.txt -o output_path &

Download Fastq Files of WGS from SRA

1. Create a txt file containing a list of ERR accession numbers.
2. Run get_WGS_data.py to download data

Parameters:

• -a or --acc_list: path to file containing list of SRA accession numbers
• -o or --output: path to output directory

Example:

nohup python3 get_SRA_data.py -a acc.txt -o output_path &