Citation: C. Ulpinnis (2017-02-07): Pre-release of scripts for an automated processing of genomic sequence data to predict gene models. DOI:10.5447/ipk/2017/0

Abstract: The published scripts are integrated in a pipeline which was developed at the IPK in the frame of a master thesis. The pipeline aims to perform a gene prediction in genomic data using additional information from RNA-seq data. The process is divided into four main steps that integrate several external tools: 1) RNA-Seq-Scaffolding (L_RNA_Scaffolder), 2) repeat masking (Kmasker), 3) RNA-seq alignment (STAR or HISAT2) and 4) gene prediction (GeMoMa). The pipeline is developed to work at the computing infrastructure of the IPK.

License: CC BY 4.0 (Creative Commons Attribution)

DOI: 10.5447/ipk/2017/0