India

Download

india@lists.galaxyproject.org

May 2025

3 participants
1 discussions

Request to install our developed pipeline LncRAnalyzer to Galaxy server from Galaxy toolshed
by SHINDE NIKHIL DHANAJI (RC2113010011030) 25 May '25

25 May '25

Dear Sir/Madam, I hope this message finds you well. We are pleased to inform you that we have developed an automated analysis pipeline named LncRAnalyzer [ https://gitlab.com/nikhilshinde0909/LncRAnalyzer] for the identification of long non-coding RNAs (lncRNAs) and non-protein-coding transcripts (NPCTs) from RNA-Seq data. The workflow is comprehensive and integrates eight established bioinformatics tools, including a dedicated module for lncRNA conservation analysis. Currently, LncRAnalyzer supports execution in Conda, Docker, and Singularity environments, making it flexible and accessible across various systems. However, in order to further enhance its usability and reach a broader research community, we are keen on making it available via the Galaxy platform, which is widely used for RNA-Seq data analysis due to its user-friendly interface and reproducible workflow environment. In this regard, we uploaded our pipeline at Galaxy-toolshed [ https://toolshed.g2.bx.psu.edu/view/nikhilshinde0909/lncranalyzer/9dd1c1cb2…] and Galaxy-testtolshed [ https://testtoolshed.g2.bx.psu.edu/view/nikhilshinde0909/lncranalyzer/db919…] but to install it at Galaxy-plantform [https://usegalaxy.org/] admin need to be do it. Therefore, we kindly request you to install this workflow into Galaxy from Galaxy-toolshed or Galaxy-testtoolshed. We believe that this workflow will be highly valuable to the Indian bioinformatics community working on transcriptome analysis, particularly in the domain of non-coding RNAs. Thank you very much for your time and consideration. We look forward to your positive response. Warm regards, Shinde Nikhil SRM Institute of Science and Technology, SRM nagar, Kattankulanthur, Chengalpattu district, Tamil Nadu 603203 India

3 2