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GMcloser: closing gaps in assemblies accurately with a likelihood-based selection of contig or...
By Shruti Paniwala 2925 days agoacademic.oup.com - GMcloser uses likelihood-based classifiers calculated from the alignment statistics between scaffolds, contigs and paired-end reads to correctly assign contigs or long reads to gap regions of scaffolds, thereby achieving accurate and efficient gap...Bioinformatics Algorithms (Part 1) with Pavel Pevzner, Phillip E. C. Compeau,
By Jitendra Narayan 4639 days ago Comments (2)The course Bioinformatics Algorithms (Part 1) by Pavel Pevzner, Phillip E. C. Compeau, and Nikolay Vyahhi from University of California, San Diego will be offered free of charge to everyone on the Coursera platform. Sign up at...GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
By Abhimanyu Singh 3309 days agogithub.com - GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generation sequencing assemblies capable of using diverse information sources. GRASS offers a mixed-integer programming formulation of the contig scaffolding problem, which...Walk-in-Interview @ Indian Agricultural Statistics Research Institute
Indian Agricultural Statistics Research Institute Library Avenue, Pusa, New Delhi – 110012 Walk-in-Interview Walk-in-interview will be held on October 5, 2013 at 10:00 A.M. at IASRI, New Delhi for a project “A New Distributed Computing...RaGOO: Fast Reference-Guided Scaffolding of Genome Assembly Contigs
By BioJoker 2614 days agogithub.com - Alonge M, Soyk S, Ramakrishnan S, Wang X, Goodwin S, Sedlazeck FJ, Lippman ZB, Schatz MC: Fast and accurate reference-guided scaffolding of draft genomes. bioRxiv 2019. RaGOO is a tool for coalescing genome assembly contigs into...Shendure Lab
The Shendure Lab is part of the Department of Genome Sciences at the University of Washington (Seattle, WA). The mission of the lab is to develop and apply new technologies in genomics and molecular biology. Most projects in the lab exploit new DNA...repeat-aware: Repeat aware scaffolding evaluation framework by Igor Mandric
By Jit 3006 days agogithub.com - Genome scaffolding is a classical challenging problem in bioinformatics. It refers to joining assembly contigs into chains (called scaffolds). The join between two contigs A and B is considered correct if: Their relative orientation is...Shankar Lab
Research Interest: (A) Regulatory System Analysis with respect to microRNAs (B) Computational Epigenomics & Regulomics: (C) Computational issues with Next Generation Sequencing: Department of Biotechnology, Institute of Himalyan...ALLHiC: Phasing and scaffolding polyploid genomes based on Hi-C data
By BioStar 2732 days agogithub.com - The major problem of scaffolding polyploid genome is that Hi-C signals are frequently detected between allelic haplotypes and any existing stat of art Hi-C scaffolding program links the allelic haplotypes together. To solve the problem, we developed...DbBrowser: Attwood Lab
DbBrowser: Attwood Lab research concerns protein sequence analysis, primarily using the method of protein 'fingerprinting'. DbBrowser: Attwood Lab maintain a diagnostic fingerprint database (PRINTS), one of the founding partner of InterPro. We also...
