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- Documentation: http://sharcgs.molgen.mpg.de/software/sharcgs.shtml
- person_outline Heinz Himmelbauer
Publication for SHARCGS
A base composition analysis of natural patterns for the preprocessing of metagenome sequences
[…] ches from probability theory, or from the memory-based, are gaining popularity. This was determined by Zhang et. al.  who compared the performance of eight distinct tools (i.e., SSAKE, VCAKE, QSRA, SHARCGS, Edena, Velvet, SOAPdenovo, and Taipan) against eight groups of simulated datasets.In metagenomic studies, where there are different kinds of reads or contigs mixed together into the same pool […]
Evaluating the Fidelity of De Novo Short Read Metagenomic Assembly Using Simulated Data
[…] s. The greedy algorithm used by CAP3 , Phrap and TIGR assembler is conceptually the simplest solution to genome assembly and new tools tailored to NGS data have been developed recently like SSAKE , SHARCGS or VCAKE . But maybe the most popular algorithmic solution is the Overlap-Layout-Consensus (OLC) algorithm used in the Celera Assembler , Arachne , , PCAP or Mira to name a few. With the con […]
Large scale single nucleotide polymorphism discovery in unsequenced genomes using second generation high throughput sequencing technology: applied to turkey
[…] For the actual SNP detection, a required reference genome was constructed by first performing de novo short read sequence assembly. Available de novo assemblers were SSAKE , SHARCGS , Edena , Velvet , and ALLPATHS . Likely because of the large genome target and relatively high error rate of 1% ALLPATHS and SHARCGS showed an unfeasible large memory footprint and ru […]
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