COLOMBO/SIGI-HMM pipeline

COLOMBO/SIGI-HMM specifications

Information


Unique identifier OMICS_08273
Name COLOMBO/SIGI-HMM
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java, Perl
Computer skills Medium
Stability Stable
Maintained Yes

Subtools


  • FSIGI-HMM
  • SIGI
  • SIGI-HMM

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Publications for COLOMBO/SIGI-HMM

COLOMBO/SIGI-HMM IN pipelines

 (2)
2016
PMCID: 4886054
PMID: 27303384
DOI: 10.3389/fmicb.2016.00797

[…] et al., 2009; bustamante et al., 2012; acuña et al., 2013)., the three regions are enriched in horizontally transferred genes (alien genes) based on the predictions obtained from the application of sigi-hmm (figure 8). putative genomic island 1 (figure 8: gi-1, 42–126 kbp) is ~85 kbp in size and has an average g+c-content of 56.1%, which is 11% higher than the average g+c-content […]

2012
PMCID: 3401170
PMID: 22911766
DOI: 10.1371/journal.pone.0041247

[…] replicons were identified by pcr and sequencing are marked with c (which could indicate the presence of both an inci1 and an incfib plasmids or the presence of a cointegrated plasmid)., we used sigi-hmm [34] and comparative genomic analyses with the mauve algorithm and rast [35]–[37] to predict and identify putative genomic islands among the 16 genomes analyzed here. as expected, a number […]

COLOMBO/SIGI-HMM institution(s)
Institut für Informatik, Universität Göttingen, Göttingen, Germany

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