Sequence Assembly Software |
| TGICL | TGICL - Software for the fast clustering of large EST datasets. The clustering is performed by a slightly modified version of NCBI megablast, and the resulting clusters are then assembled using CAP3 assembly program. |
| PCAP | PCAP - A Sequence assembly suite, constructs an alignment of sequence reads and generates a consensus sequence for each contig. References: Huang, X., Wang, J., Aluru, S., Yang, S.-P. and Hillier, L. (2003) PCAP: A Whole-Genome Assembly Program, Genome Research, 13: 2164-2170. |
SNP Analysis Software |
| PolyBayes |
POLYBAYES 3.0 The PolyBayes computer program is primarily designed as a tool for reliable discovery of single-nucleotide polymorphisms (SNPs) in redundant sequence data. SNP detection is performed through the analysis of base-wise multiple alignments of clustered DNA sequences. The program provides additional (optional) utilities to aid in the creation of such multiple alignments and to identify sequences within these alignments that are likely to represent closely related sequence duplicates originating from disparate genomic locations (e.g. representing members of multi-gene families, repeats, and local inverted or tandem duplications). Copyright (C) 1998, 1999, 2000, 2001 Gabor T. Marth Washington University, St. Louis, Missouri USA. All Rights Reserved. |
| SNP2CAPS | SNP2CAPS: SNP and INDEL analysis tool for CAPS marker development. Nucleic Acids Research, 2004, Vol. 32, No.1 |
Multiple Sequence Alignment |
| ClustalW-MPI |
ClustalW-MPI ClustalW-MPI analysis using distributed and parallel computing Li KB, Bioinformatics, 2003, 19: 1585-1586. Kuo-Bin Li, Bioinformatics Institute, 30 Medical Drive, Singapore 117609, Republic of Singapore |