Francesco Musacchia1, Swaraj Basu1, Giuseppe Petrosino1, Marco Salvemini1, Remo Sanges1. 1. Biology and Evolution of Marine Organisms, Stazione Zoologica "Anton Dohrn", Villa Comunale, 80121, Naples, Italy and Department of Biology, University of Naples Federico II, Via Mezzocannone 8, 80134, Naples, Italy.
Abstract
UNLABELLED: The eukaryotic transcriptome is composed of thousands of coding and long non-coding RNAs (lncRNAs). However, we lack a software platform to identify both RNA classes in a given transcriptome. Here we introduce Annocript, a pipeline that combines the annotation of protein coding transcripts with the prediction of putative lncRNAs in whole transcriptomes. It downloads and indexes the needed databases, runs the analysis and produces human readable and standard outputs together with summary statistics of the whole analysis. AVAILABILITY AND IMPLEMENTATION: Annocript is distributed under the GNU General Public License (version 3 or later) and is freely available at https://github.com/frankMusacchia/Annocript. CONTACT: remo.sanges@szn.it.
UNLABELLED: The eukaryotic transcriptome is composed of thousands of coding and long non-coding RNAs (lncRNAs). However, we lack a software platform to identify both RNA classes in a given transcriptome. Here we introduce Annocript, a pipeline that combines the annotation of protein coding transcripts with the prediction of putative lncRNAs in whole transcriptomes. It downloads and indexes the needed databases, runs the analysis and produces human readable and standard outputs together with summary statistics of the whole analysis. AVAILABILITY AND IMPLEMENTATION: Annocript is distributed under the GNU General Public License (version 3 or later) and is freely available at https://github.com/frankMusacchia/Annocript. CONTACT: remo.sanges@szn.it.
Authors: Molly E Shuman-Goodier; Grant R Singleton; Anna M Forsman; Shyann Hines; Nicholas Christodoulides; Kevin D Daniels; Catherine R Propper Journal: Environ Pollut Date: 2020-11-06 Impact factor: 8.071