TY  - JOUR
A1  - Wang, Jun
A1  - Wong, Gane Ka-Shu
A1  - Ni, Peixiang
A1  - Han, Yujun
A1  - Huang, Xiangang
A1  - Zhang, Jianguo
A1  - Ye, Chen
A1  - Zhang, Yong
A1  - Hu, Jianfei
A1  - Zhang, Kunlin
A1  - Xu, Xin
A1  - Cong, Lijuan
A1  - Lu, Hong
A1  - Ren, Xide
A1  - Ren, Xiaoyu
A1  - He, Jun
A1  - Tao, Lin
A1  - Passey, Douglas A.
A1  - Wang, Jian
A1  - Yang, Huanming
A1  - Yu, Jun
A1  - Li, Songgang
T1  - 
RePS: A Sequence Assembler That Masks Exact Repeats Identified from the Shotgun Data
Y1  - 2002/05/01 
JF  - Genome Research 
JO  - Genome Research 
SP  - 824 
EP  - 831 
DO  - 10.1101/gr.165102 
VL  - 12 
IS  - 5 
UR  - http://genome.cshlp.org/content/12/5/824.abstract 
N2  - We describe a sequence assembler, RePS(repeat-masked Phrap with scaffolding), that explicitly identifies exact 20mer repeats from the shotgun data and removes them prior to the assembly. The established software Phrap is used to compute meaningful error probabilities for each base. Clone-end-pairing information is used to construct scaffolds that order and orient the contigs. We show with real data for human and rice that reasonable assemblies are possible even at coverages of only 4× to 6×, despite having up to 42.2% in exact repeats.[The following individuals kindly provided reagents, samples, or unpublished information as indicated in the paper: P. Green and A.F. Smit.] 
ER  -