GARM:Genome Assembly, Reconciliation and Merging
The pipeline is based mainly implemented using Perl scripts and modules and third-party open source software like the AMOS (Myers et al., 2000) and MUMmer (Kurtz et al., 2004) packag...2687 days ago
Prodigal (Prokaryotic Dynamic Programming Genefinding Algorithm)
...aining many sequences. It does not need to be supplied with any knowledge of the organism, as it learns all the properties it needs to on its own. Open Source: Prodigal source code...2677 days ago
Pacbio Long Reads Compatible Software and Tools
...o PacBio's own SMRT® Analysis suite. All packages are believed to be open source or freely available fo...tion. A separate page lists commercial software. Know of any other open source software for PacBio da...2601 days ago
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A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
...y related reference. IMAGE, an iterative approach for closing gaps in assembled genomes using mate pair information. It is able to close gaps left open by the assembler in a draft g...2543 days ago
CABOG: Celera Assembler with Best Overlap Graph
...at Celera for the 2001 publication of the first draft human genome sequence. The software was released to the public domain in 2004. Its open source repository o...2540 days ago
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SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology
...nformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platforms quickly, easily and effectively. SIMBA also is open source tool, i.e., can be fre...2532 days ago
DIYA: a bacterial annotation pipeline for any genomics lab
DIY Genomics is an open source bioinformatics consortium intended to bring a collection of tools and libraries into the hands of small scale genomics labs for the process of sequence assembly and annotation. Projects include DIYA, MGAP, CRISPR, and DIYGV http://gmod.org/wiki/Diya2494 days ago