Barnacle 1.0.4 – Detecting and Characterizing Tandem Duplications and Fusions in Transcriptome Assembly

Barnacle 1.0.4

:: DESCRIPTION

Barnacle (Browsing Assembled RNA for Chimeras with Localized Evidence) is a pipeline for detecting and characterizing chimeric transcripts from long RNA sequences, such as those generated by de novo transcriptome assembly.

::DEVELOPER

Canada’s Michael Smith Genome Sciences Centre

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux

:: DOWNLOAD

 Barnacle

:: MORE INFORMATION

Citation

BMC Genomics. 2013 Aug 14;14:550. doi: 10.1186/1471-2164-14-550.
Barnacle: detecting and characterizing tandem duplications and fusions in transcriptome assemblies.
Swanson L et al.

BARNACLE 0.21 – RNA 3D Structure Prediction

BARNACLE 0.21

:: DESCRIPTION

BARNACLE (BAyesian network model of RNA using Circular distributions and maximum Likelihood Estimation) is a Python library for RNA 3D structure prediction. It can be used for probabilistic sampling of RNA structures that are compatible with a given nucleotide sequence and that are RNA like on a local length scale.

::DEVELOPER

The Bioinformatics Centre , University of Copenhagen

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux/ MacOsX/ Windows
  • Python

:: DOWNLOAD

 BARNACLE

:: MORE INFORMATION

Citation:

Frellsen J, Moltke I, Thiim M, Mardia KV, Ferkinghoff-Borg J, HamelryckT (2009)
A Probabilistic Model of RNA Conformational Space.
PLoS Comput Biol 5(6): e1000406.