gse2srr.sh : a portable script to convert IDs from GSE to SRR

2023-03-18.055417.mp4

Features

• minimal dependencies
  • bash
  • wget or curl

Important

You do NOT need to install entrez-direct (https://www.biostars.org/p/97782/).

Installation

curl -O https://raw.githubusercontent.com/akikuno/gse2srr/main/gse2srr.sh
# or
wget https://raw.githubusercontent.com/akikuno/gse2srr/main/gse2srr.sh

Usage

sh gse2srr.sh <GSE Number>

Example

sh gse2srr.sh GSE199916
# SRR18579290
# SRR18579291
# SRR18579292
# SRR18579293
# SRR18579294
# SRR18579295
# SRR18579296
# SRR18579297

Other tools

• prjna2srr.sh: to convert PRJNA (BioProject accession ID) to SRR

Questions and bug reporting

Questions, bug reporting or any inqueries are always welcome!
Please reprt to the GitHub Issues

• Questions by creating a new issue with the question tag
• Bugs by creating a new issue with the bug tag