:: DESCRIPTION
LASER is based on QUAST genome assembly program and provides huge performance improvements for large genomes.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
LASER: Large genome ASsembly EvaluatoR.
Khiste N, Ilie L.
BMC Res Notes. 2015 Nov 24;8:709. doi: 10.1186/s13104-015-1682-y.
:: DESCRIPTION
SAGE is a new string-overlap graph-based de novo genome assembler.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2014 Sep 15;15:302. doi: 10.1186/1471-2105-15-302.
SAGE: String-overlap Assembly of GEnomes.
Ilie L1, Haider B, Molnar M, Solis-Oba R.
:: DESCRIPTION
SAVAGE is a computational tool for reconstructing individual haplotypes of intra-host virus strains (a viral quasispecies) without the need for a high quality reference genome.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Genome Res. 2017 May;27(5):835-848. doi: 10.1101/gr.215038.116. Epub 2017 Apr 10.
De novo assembly of viral quasispecies using overlap graphs.
Baaijens JA, Aabidine AZE, Rivals E, Schönhuth A.
:: DESCRIPTION
RaGOO is a tool to order and orient genome assembly contigs via Minimap2 alignments to a reference genome.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
RaGOO: fast and accurate reference-guided scaffolding of draft genomes.
Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC.
Genome Biol. 2019 Oct 28;20(1):224. doi: 10.1186/s13059-019-1829-6.
:: DESCRIPTION
ARIBA is a tool that identifies antibiotic resistance genes by running local assemblies.
::DEVELOPER
Pathogen Informatics, Wellcome Trust Sanger Institute
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
J Glob Antimicrob Resist. 2019 Sep 7;19:129-131. doi: 10.1016/j.jgar.2019.09.001. [Epub ahead of print]
Draft genome of a macrolide resistant XDR Salmonella enterica serovar Paratyphi A strain using a shotgun sequencing approach.
Khatoon A, Malik HMT, Aurongzeb M, Raza SA, Karim A.
:: DESCRIPTION
TAG is a tool for metatranscriptome assembly using de Bruijn graph of matched metagenome as the reference
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Utilizing de Bruijn graph of metagenome assembly for metatranscriptome analysis.
Ye Y, Tang H.
Bioinformatics. 2015 Aug 29. pii: btv510.
:: DESCRIPTION
AIDA is a tool that can identify domains in multi-domain proteins and then predict their 3D structures and relative spatial arrangements.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: MORE INFORMATION
Citation:
Nucleic Acids Res. 2014 Jul;42(Web Server issue):W308-13. doi: 10.1093/nar/gku369. Epub 2014 May 15.
AIDA: ab initio domain assembly server.
Xu D, Jaroszewski L, Li Z, Godzik A
:: DESCRIPTION
DETONATE consists of two component packages, RSEM-EVAL and REF-EVAL. Both packages are mainly intended to be used to evaluate de novo transcriptome assemblies, although REF-EVAL can be used to compare sets of any kinds of genomic sequences.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Genome Biol. 2014 Dec 21;15(12):553. doi: 10.1186/s13059-014-0553-5.
Evaluation of de novo transcriptome assemblies from RNA-Seq data.
Li B, Fillmore N, Bai Y, Collins M, Thomson JA, Stewart R, Dewey CN.
:: DESCRIPTION
BinPacker is a novel de novo assembler by modeling the transcriptome assembly problem as tracking a set of trajectories of items with their sizes representing coverage of their corresponding isoforms by solving a series of bin-packing problems.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BinPacker: Packing-Based De Novo Transcriptome Assembly from RNA-seq Data.
Liu J, Li G, Chang Z, Yu T, Liu B, McMullen R, Chen P, Huang X.
PLoS Comput Biol. 2016 Feb 19;12(2):e1004772. doi: 10.1371/journal.pcbi.1004772.
:: DESCRIPTION
DNA Baser is a tool for DNA sequence assembly, DNA sequence analysis, contig editing, and mutation detection. It also offers a powerful chromatogram viewer/editor.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
