PETcofold specifications

Information


Unique identifier OMICS_18683
Software type Package/Module
Interface Web user interface
Restrictions to use None
Input data Two RNA sequence alignments.
Input format FORMAT
Output data The input, phylogenetic tree, the PETcofold plain text output including the predicted joint RNA secondary structure and score, an image of the covariance and paired reliabilities in the concatenated RNA multiple alignment, and a dotplot of base pair and single stranded reliabilities calculated by PETcofold.
Computer skills Basic
Version 3.2
Stability Stable
Maintained Yes

Documentation


Maintainers


  • person_outline Rolf Backofen <>
  • person_outline Jan Gorodkin <>
  • person_outline Stefan Seemann <>

Information


Unique identifier OMICS_18683
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data Two RNA sequence alignments.
Input format FASTA
Operating system Unix/Linux
Computer skills Advanced
Version 3.2
Stability Stable
Requirements Pfold, the Vienna RNA Package
Maintained Yes

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Documentation


Maintainers


  • person_outline Rolf Backofen <>
  • person_outline Jan Gorodkin <>
  • person_outline Stefan Seemann <>

PETcofold articles

PETcofold institution(s)
Center for non-coding RNA in Technology and Health, Department of Veterinary Clinical and Animal Sciences, Faculty for Health and Medical Sciences, University of Copenhagen, Denmark; IBHV, University of Copenhagen, Denmark; Bioinformatics Group, University of Freiburg, Freiburg, Germany; Center for Integrative Bioinformatics Vienna (CIBIV), Max F. Perutz Laboratories (MFPL), University of Vienna, Medical University of Vienna and University of Veterinary Medicine, Vienna, Austria; Centre for Biological Signalling Studies (BIOSS), University of Freiburg, Freiburg, Germany
PETcofold funding source(s)
Supported by Lundbeck Foundation (grant 374/06); Danish Research Council for Technology and Production Sciences (grant 274-09-0282); Danish Center for Scientific Computation; German Federal Ministry of Education and Research (BMBF grant 0313921); German Research Foundation (DFG grants BA 2168/2-2 and BA 2168/4-1); Excellence Initiative of the German Federal and State Governments (grant EXC 294); Austrian GEN-AU project Bioinformatics Integration Network III and Wiener Wissenschafts-, Forschungsand Technologiefonds (WWTF) to the CIBIV Institute.

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