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...ryotic genomes is notoriously difficult to automate. The task is to design a work...with a minimal set of tools that would reach state-of-the-art performance across...eMark-ET is a gene prediction tool that incorporates RNA-Seq data into unsupervis...2003 days ago
- ...igs, paired-end and/or mate pairs sequencing libraries&nb...at should be less fragmented and with total siz...e pipeline consists of three steps/modules: redundancy redu...library types (paired-end, mate pairs, fosmids) modular: eve...
2855 days ago
- ...r data format is compatible. Your file must be plain text. Your data values must be non-negative integers. Data must be space-sepa...e same name. Column and row names must begin with a letter (e.g. 'A', 'A0', 'A-0')...
2854 days ago
- These tutorials are written for hundreds of bioinformaticians t...eneration sequencing (NGS) data. NGS technologies brought a dramatic..., genome sequencing of higher eukaryotes used to be very expensive en...g and assembly were handled by dedicated sequencing facilities, of wh...
2851 days ago
- ...d by the bioinformatics department at The Institute for Genomic Research (TIGR) and development continues at the J. Craig Venter Institute (JCVI) and the Ins.... The following sections provide some high-level technical details about the over...
2849 days ago
- ...DNA sequences. It can be used 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...
2849 days ago
GAGE : Genome Assembly Gold-standard Evaluation
GAGE is an evaluation of the very latest large-scale genome assembly algorithms. We have organized this "bake-off" as an attempt to produce a realistic ass...assembly algorithms. http://genome.cshlp.org/content/early/2012/01/12/gr.131383....2849 days ago
OPERA : Optimal Paired-End Read Assembler
...). It uses information from paired-end/mate-pair/long reads to order and orient the intermediate contigs/scaffolds ass...information provided by the paired-end/mate-pair/long reads (for further...encourage you to download and use our latest version: OPERA-LG. In our b...2847 days ago
- ...pical assembler, fermi also aims to preserve heterozygotes which are often collaps...workflow.As a typical de novo assembler, fermi tends to produce contigs with sl...to use the run-fermi.pl script. It generates a Makefile. The actual assem...
2847 days ago
CGView - Circular Genome Viewer
...package used to display and navigate bacterial genomes. GView is useful...s for use in publications and websites, or as a visualization tool...me using a powerful pan-and-zoom interface, or GView can write stat...he goal of GView is to provide greater user interaction, and more f...2837 days ago
