A Post-assembly genome-improvement toolkit (PAGIT) to obtain annotated genomes from contigs
PAGIT addresses the need for software to generate high quality draft genomes. It is based on a series of programs that we developed: ABACAS, that is able to contiguate contigs from a...2552 days ago
Pollux: platform independent error correction of single and mixed genomes
...% of Roche 454 GS Junior errors. Introduced errors are 20 to 70 times more rare than successfully corrected errors. Furthermore, we show that the quality of assemblies improves when r...2545 days ago
Synteny Portal: a web-based application portal for synteny block analysis
...ong multiple species by using prebuilt alignments in the UCSC genome browser database, (ii) visualize and download syntenic relationships as high-quality images, (iii) browse synteny...2540 days ago
GraphMap - A highly sensitive and accurate mapper for long, error-prone reads
...nbsp; Circular genome handling to resolve coverage drops near ends of the genome. E-value. Meaningful mapping quality. Various al...2527 days ago
eQuant : energy-based quality assessment of protein
Protein structures are of varying quality. Especially, in-silico modeled...structures.eQuant is a service for structure quality assessment of single proteins...es a coarse-grained energy model. The overall quality is calculated as well as the...2509 days ago
slacTree: SVG Large Annotated Circular Tree drawing
...etic trees. While there are many other tree drawing programs, slacTree was originally written in 2009 to fill a need for producing publication quality figures of circular trees wit...2500 days ago
2489 days ago
Mulan: MUltiple sequence Local AligNment and conservation visualization tool
...as inversions and reshuffling) in any of the species. It combines refine and tba tools to align either "draft" or "finished" quality sequences. Mulan provides a d...2483 days ago
Meraculous: De Novo Genome Assembly with Short Paired-End Reads
...aculous relies on an efficient and conservative traversal of the subgraph of the k-mer (deBruijn) graph of oligonucleotides with unique high quality extensions in the dataset, av...2373 days ago
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
Automatic Filtering, Trimming, Error Removing and Quality Control for fastq dataAfterQC can simply go through all fastq files in a folder and then output three folders: good...2367 days ago