GeneMark specifications

Information


Unique identifier OMICS_01485
Alternative name GeneMark-ES
Software type Package/Module
Interface Command line interface
Restrictions to use Academic or non-commercial use
Input data A sequence.
Input format FASTA
Output format A protein sequence or a gene nucleotide sequence.
Operating system Unix/Linux
Computer skills Basic
Version 2.5
Stability Stable
Maintained Yes

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Documentation


Maintainers


  • person_outline Mark Borodovsky <>
  • person_outline Alex Lomsadze <>

GeneMark article

GeneMark citations

 (2)
2018
PMCID: 5844296

[…] and a. aegypti, respectively. all genomes analyzed in this study, and in newly sequenced and reference ones, were annotated using the following procedure. first, gene calling was performed using genemark-es suite version 4.32 (ter-hovhannisyan et al. 2008) with the parameter –min_contig set to 10,000 and using the –fungus option. then, clusters of orthologous groups (cogs) (tatusov et al. […]

2016
PMCID: 4895135

[…] the two libraries were assembled using soapdenovo 1.054445, with optimal assembly acquired using a key parameter (k) of 35., gene prediction was done by determining putative open reading frames with genemark-es 2.3e46. protein-encoding genes were annotated through blastp searches against the swissprot (2012–04), go (release:1.419), cog (release: 20090331), kegg (release: 59), and nr (2012–04) […]

GeneMark institution(s)
School of Biology, Georgia Institute of Technology, Atlanta, GA, USA; Department of Biomedical Engineering, Georgia Institute of Technology, Atlanta, GA, USA

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