Bubbleparse – Detecting variants directly from Next-generation Reads

Bubbleparse

:: DESCRIPTION

Bubbleparse, a method for detecting variants directly from next-generation reads without a reference sequence. Bubbleparse uses the de Bruijn graph implementation in the Cortex framework as a basis and allows the user to identify bubbles in these graphs that represent polymorphisms, quickly, easily and sensitively.

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::DEVELOPER

the Earlham Institute.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Mac OsX
  • C Compiler

:: DOWNLOAD

 Bubbleparse

:: MORE INFORMATION

Citation

PLoS One. 2013;8(3):e60058. doi: 10.1371/journal.pone.0060058. Epub 2013 Mar 25.
Identifying and classifying trait linked polymorphisms in non-reference species by walking coloured de bruijn graphs.
Leggett RM, Ramirez-Gonzalez RH, Verweij W, Kawashima CG, Iqbal Z, Jones JD, Caccamo M, Maclean D.