Shufflers:: shuffling sequences while conserving the k-let counts

被引:25
作者
Coward, E [1 ]
机构
[1] Univ Versailles, Lab Genome & Informat, F-78035 Versailles, France
关键词
D O I
10.1093/bioinformatics/15.12.1058
中图分类号
Q5 [生物化学];
学科分类号
071010 ; 081704 ;
摘要
Shufflet is a program and a web-application that generates fast random shufflings of sequences (DNA, protein or others), conserving the exact k-let counts for a given k. The sequences are sampled uniformly from all the valid permutations.
引用
收藏
页码:1058 / 1059
页数:2
相关论文
共 9 条
[1]  
ALTSCHUL SF, 1985, MOL BIOL EVOL, V2, P526
[2]  
COMET JP, 1999, IN PRESS COMPUT CHEM
[3]  
DEVEREUX J, 1989, GCG SEQUENCE ANAL SO
[4]   RANDOM SEQUENCES [J].
FITCH, WM .
JOURNAL OF MOLECULAR BIOLOGY, 1983, 163 (02) :171-176
[5]   Shuffling biological sequences [J].
Kandel, D ;
Matias, Y ;
Unger, R ;
Winkler, P .
DISCRETE APPLIED MATHEMATICS, 1996, 71 (1-3) :171-185
[6]   RAPID AND SENSITIVE PROTEIN SIMILARITY SEARCHES [J].
LIPMAN, DJ ;
PEARSON, WR .
SCIENCE, 1985, 227 (4693) :1435-1441
[7]   ON THE STATISTICAL SIGNIFICANCE OF NUCLEIC-ACID SIMILARITIES [J].
LIPMAN, DJ ;
WILBUR, WJ ;
SMITH, TF ;
WATERMAN, MS .
NUCLEIC ACIDS RESEARCH, 1984, 12 (01) :215-226
[8]  
Ripley B.D., 1987, Stochastic Simulation
[9]  
UNGER R, 1986, P MACR GEN COMP C