SOAPdenovo swMATH ID: 17028 Software Authors: R Luo, B Liu, Y Xie, Z Li, W Huang, et. al. Description: SOAP: Short Oligonucleotide Analysis Package. SOAPdenovo is a novel short-read assembly method that can build a de novo draft assembly for the human-sized genomes. The program is specially designed to assemble Illumina GA short reads. It creates new opportunities for building reference sequences and carrying out accurate analyses of unexplored genomes in a cost effective way. Now the new version is available. SOAPdenovo2, which has the advantage of a new algorithm design that reduces memory consumption in graph construction, resolves more repeat regions in contig assembly, increases coverage and length in scaffold construction, improves gap closing, and optimizes for large genome Homepage: http://soap.genomics.org.cn/soapdenovo.html Related Software: Velvet; SPAdes; ABySS; GAGE; IDBA-UD; SSAKE; ALLPATHS; Bowtie 2; SHRiMP; ARACHNE; GitHub; Oases; Mauve; IDBA; PE-Assembler; SHARCGS; QSRA; BWA; ART; GASSST Cited in: 9 Publications all top 5 Cited by 27 Authors 1 Błażewicz, Jacek 1 Frohmberg, Wojciech 1 Jean, Géraldine 1 Jiang, Tao 1 Kamal, Md. Sarwar 1 Kasprzak, Marta 1 Kierzynka, Michal 1 Krishnamoorty, Sriram 1 Kulkarni, Milind Narayanrao 1 Lee, Richard Chia-Tung 1 Liu, Yongchao 1 Lonardi, Stefano 1 Lu, Chin Lung 1 Medvedev, Paul 1 Nimmy, Sonia Farhana 1 Pan, Weihua 1 Picardi, Ernesto 1 Radulescu, Andreea 1 Rusu, Irena 1 Schmidt, Bertil 1 Shieh, Yi-Kung 1 Shyu, Shyong Jian 1 Świercz, Aleksandra 1 Tomescu, Alexandru Ioan 1 Wojciechowski, Paweł T. 1 Wright, Christopher 1 Zurkowski, Piotr Cited in 4 Serials 1 Theoretical Computer Science 1 European Journal of Operational Research 1 International Journal of Biomathematics 1 Methods in Molecular Biology Cited in 5 Fields 8 Biology and other natural sciences (92-XX) 5 Computer science (68-XX) 4 Combinatorics (05-XX) 1 General and overarching topics; collections (00-XX) 1 Operations research, mathematical programming (90-XX) Citations by Year