FastUniq: A Fast De Novo Duplicates Removal Tool for Paired Short Reads

The presence of duplicates introduced by PCR amplification is a major issue in paired short reads from next-generation sequencing platforms. These duplicates might have a serious impact on research applications, such as scaffolding in whole-genome sequencing and discovering large-scale genome variations, and are usually removed. We present FastUniq as a fast de novo tool for removal of duplicates in paired short reads. FastUniq identifies duplicates by comparing sequences between read pairs and does not require complete genome sequences as prerequisites. FastUniq is capable of simultaneously handling reads with different lengths and results in highly efficient running time, which increases linearly at an…

• NS
  National Science Foundation
• NN
  National Natural Science Foundation of China

  Awards: 81130069, 31170619, 30901156, IRT1150
• MO
  Ministry of Education of the People's Republic of China

  Award: IRT1150
• PF
  Program for Changjiang Scholars and Innovative Research Team in University

  Award: IRT1150