Discover our collection of 4 research tools and applications for computational genomics.
Found 4 of 4 tools
ANNOgesic is the swiss army knife for RNA-Seq based annotation of bacterial/archaeal genomes. It is a modular, command-line tool that can integrate different types of RNA-Seq data based on dRNA-Seq (differential RNA-Seq) or RNA-Seq protocols that inclusde transcript fragmentation to generate high quality genome annotations. It can detect genes, CDSs/tRNAs/rRNAs, transcription starting sites (TSS) and processing sites, transcripts, terminators, untranslated regions (UTR) as well as small RNAs (sRNA), small open reading frames (sORF), circular RNAs, CRISPR related RNAs, riboswitches and RNA-thermometers. It can also perform RNA-RNA and protein-protein interactions prediction.
Somatic copy number analysis using WGS paired end wholegenome sequencing
ASGAL (Alternative Splicing Graph ALigner) is a tool for detecting the alternative splicing events expressed in a RNA-Seq sample with respect to a gene annotation. The main idea behind ASGAL is the following one: the alternative splicing events can be detected by aligning the RNA-Seq reads against the splicing graph of the gene.
Sequential regulatory activity predictions with deep convolutional neural networks.