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...ed to identify and analyse regions of similarity and difference between genomes and to explore conservation of synteny, in the context of the entire sequences and their annotation. It can read compl...2856 days ago
GAGE : Genome Assembly Gold-standard Evaluation
...s an evaluation of the very latest large-scale genome assembly algorithms. We hav...n attempt to produce a realistic assessment of genome assembly software in a rapi...ration sequencing. The main results of GAGE have now been published in the journa...2856 days ago
OPERA : Optimal Paired-End Read Assembler
...ediate contigs/scaffolds assembled in a genome assembly project, in a process known as Scaffolding. OPERA is ba...hat are important for scaffolding large genomes (multi-library support, be...res and algorithms is available at Genome Biology. We look forward to...2854 days ago
- Fermi is a de novo assembler with a particular focus o...sequence reads from a mammal-sized genome. In addition to the role of...as a similar workflow.As a typical de novo assembler, fermi tends to p...mparable to other assemblers, this is not a favorable solution.Fe...
2854 days ago
CGView - Circular Genome Viewer
...play and navigate bacterial genomes. GView is useful for producing high-quality genome maps for use in publication...lization tool in a sequence annotation pipeline. Users can int...write of CGView, a circular genome viewer written by Paul Stot...or for application to other genome maps using GView's custom f...2844 days ago
BLAST Ring Image Generator (BRIG)
...ar comparisons between a large number of genomes, with a focus on handling genome assembly data. The applicat...read coverage can be displayed for draft genomes; customized graphs and ann...AM-formatted read-mapping files enabling genomic regions present in unassem...2833 days ago
- ...l for visualizing genetic and physical maps of genomes for comparative purposes....rs, and explore syntenic relationships between genomes. All browsing and interact...th Strudel happens in real-time – there is no need to wait while the maps a...
2833 days ago
- ...am that is exteremely fast (17 CPU hours for whole Human x Mouse genome (with 40 nodes: 35 wall minutes), or 8 ma...wall minutes)) scalable (Arbitrarily parallelizable across multiple nodes using MPI) memory efficie...
2833 days ago
Nemo – A stochastic, individual-base, genetically explicit simulation platform
...g. SNPs) and loci under selection (QTLs, deleterious mutations, DMIs) can now be specified explicitly, or...loid or diploid pairs of incompatible loci can be spread throughout the genome and affect individual fitne...2832 days ago
- The accurate description and annotation of structural variants can be complex. &n...le rearrangements in a single area of the genome can make cataloguing and in...chromosome 11). Syntax is based on HGVS mutation nomenclature recommendations&nbs...
2832 days ago
