Cap3 assembler manual

CAP3 determines a minimum band of diagonals for an overlapping alignment between two sequence reads. The band is expanded by a number of bases specified by this value (parameter -a of CAP3). CAP3 and PCAP and www.doorway.ru are freely available for use at non-profit organizations. CAP3 and PCAP and www.doorway.ru are available for use at company under a licensing agreement from Michigan Tech. For information on a licensing agreement, please contact Robin Kolehmainen by email at rakolehm@www.doorway.ru or by phone at CAP3 Assembly Program. A version of CAP3 for a bit Linux system with an Intel processor: download tar file. This version can accept sequences of length = 30 kb; there is no need to specify this with an option. A version of CAP3 for a bit Linux system with an Intel processor download tar file.

The SnapGene "Assemble Contigs" tool uses the CAP3 assembler to assemble reads into one or more contiguous assemblies.. This tool is designed primarily for assembly of a small set of Sanger reads, all derived from the same clonal source, and all of which are expected to overlap to form a contiguous sequence. The pipeline utilizes the CAP3 assembler, and is based on initial detection of candidate insertions based on the program RetroSeq. Note Manual changes must be. This form allows you to assemble a set of contiguous sequences (contigs) with the CAP3 program. If you use CAP3 in any published work, please cite the following reference: Huang, X. and Madan, A. () CAP3: A DNA sequence assembly program. Genome Res., 9,

ABySS is a de novo, parallel, paired-end sequence assembler that is designed for short reads. The single-processor version is useful for assembling genomes. The wcd manual, a companion paper describing underlying algorithms, and all datasets The assembler, CAP3, is also often used (Huang and Madan, ). 16 серп. р. cause differences between reads and the reference genome [9–11]. as input into the CAP3 assembler [26], default settings), which uses.