Tag: BRANCH

GDBB 1.01 – Genetic Design through Branch and Bound

GDBB 1.01

:: DESCRIPTION

GDBB is a computational design tool for metabolic engineering. GDBB uses an efficient truncated branch and bound approach to identify favorable genetic designs from flux-balance metabolic models.

::DEVELOPER

Desmond Lun

:: SCREENSHOTS

N/a

::REQUIREMENTS

  • Linux / Windows/ MacOsX
  • MatLab

:: DOWNLOAD

  GDBB

:: MORE INFORMATION

Citation

Bioinformatics. 2012 Jun 15;28(12):1619-23. doi: 10.1093/bioinformatics/bts255. Epub 2012 Apr 28.
Truncated branch and bound achieves efficient constraint-based genetic design.
Egen D1, Lun DS.

BRANCH 1.8.1 – boosting RNA-Seq Assemblies with Partial or related Genomic Sequences

BRANCH 1.8.1

:: DESCRIPTION

BRANCH is a software that extends de novo transfrags and identifies novel transfrags with DNA contigs or genes of close related species. BRANCH discovers novel exons first and then extends/joins fragmented de novo transfrags, so that the resulted transfrags are more complete.

::DEVELOPER

Girke Lab

:: SCREENSHOTS

n/a

:: REQUIREMENTS

:: DOWNLOAD

  BRANCH

:: MORE INFORMATION

Citation

BRANCH: boosting RNA-Seq assemblies with partial or related genomic sequences
Ergude Bao, Tao Jiang and Thomas Girke (2013)
Bioinformatics (2013) 29 (10): 1250-1259.doi: 10.1093/bioinformatics/btt127