compileSpliceCands

gene prediction in eukaryotic genomes

Install

All systems
curl cmd.cat/compileSpliceCands.sh
Debian Debian
apt-get install augustus
Ubuntu
apt-get install augustus
image/svg+xml Kali Linux
apt-get install augustus
Windows (WSL2)
sudo apt-get update sudo apt-get install augustus
OS X
brew install augustus
Raspbian
apt-get install augustus
Dockerfile
dockerfile.run/compileSpliceCands

augustus

gene prediction in eukaryotic genomes

AUGUSTUS is a software for gene prediction in eukaryotic genomic sequences that is based on a generalized hidden Markov model (HMM), a probabilistic model of a sequence and its gene structure. After learning gene structures from a reference annotation, AUGUSTUS uses the HMM to recognize genes in a new sequence and annotates it with the regions of identified genes. External hints, e.g. from RNA sequencing, EST or protein alignments etc. can be used to guide and improve the gene finding process. The result is the set of most likely gene structures that comply with all given user constraints, if such gene structures exist. AUGUSTUS already includes prebuilt HMMs for many species, as well as scripts to train custom models using annotated genomes.