Eagle

Eagle is a software tool for identification of pathogen-specific signatures. The Eagle algorithm uses an alignment-free technique to determine minimal Relative Absent Words (mRAWs) in sequenced genomic data. Eagle also computes Gnuplots and estimates distributions of CG.

Topic

Genomics;Sequencing;Virology

Detail

  • Operation: Sequence feature detection;Sequence word comparison

  • Software interface: Command-line user interface

  • Language: Shell;C

  • License: GNU General Public License v3

  • Cost: Free

  • Version name: 1.1

  • Credit: The European Fund for Regional Development (FEDER); Operational Program Competitiveness Factors (COMPETE), the Portuguese Foundation for Science and Technology (FCT), the European Union Seventh Framework Programme, RD-Connect: An integrated platform connecting registries, biobanks and clinical bioinformatics for rare disease research, the project Neuropath, QREN Mais Centro program and the EU.

  • Input: FASTA

  • Output: -

  • Contact: Diogo Pratas pratas@ua.pt, Raquel M. Silva raquelsilva@ua.pt, jlo@ua.pt

  • Collection: -

  • Maturity: Stable

Publications

  • Allele-specific expression reveals interactions between genetic variation and environment.
  • Knowles DA, Davis JR, Edgington H, Raj A, Favé MJ, Zhu X, Potash JB, Weissman MM, Shi J, Levinson DF, Awadalla P, Mostafavi S, Montgomery SB, Battle A. Allele-specific expression reveals interactions between genetic variation and environment. Nat Methods. 2017 Jul;14(7):699-702. doi: 10.1038/nmeth.4298. Epub 2017 May 22. PMID: 28530654; PMCID: PMC5501199.
  • https://doi.org/10.1038/nmeth.4298
  • PMID: 28530654
  • PMC: PMC5501199
  • Three minimal sequences found in Ebola virus genomes and absent from human DNA.
  • Silva RM, Pratas D, Castro L, Pinho AJ, Ferreira PJ. Three minimal sequences found in Ebola virus genomes and absent from human DNA. Bioinformatics. 2015 Aug 1;31(15):2421-5. doi: 10.1093/bioinformatics/btv189. Epub 2015 Apr 2. PMID: 25840045; PMCID: PMC4514932.
  • https://doi.org/10.1093/bioinformatics/btv189
  • PMID: 25840045
  • PMC: PMC4514932

Download and documentation

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