Jit
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GAM-NGS: genomic assemblies merger for next generation sequencing
By Jit 2778 days agogithub.com - GAM-NGS is a tool able to merge two or more assemblies in order to improve contiguity and correctness. It can be used on all NGS-based assembly projects and it shows its full potential with multi-library Illumina-based projects. With more than 20...CAMSA :: a tool for Comparative Analysis and Merging of Scaffold Assemblies
By Rahul Nayak 2555 days agohttps://cblab.org/camsa/ - CAMSA – is a tool for Comparative Analysis and Merging of Scaffold Assemblies, distributed both as a standalone software package and as Python library under the MIT license. Main features: works with any number of...MIX: Combining multiple assemblies from NGS data
By Rahul Nayak 2424 days agogithub.com - Mix is a tool that combines two or more draft assemblies, without relying on a reference genome and has the goal to reduce contig fragmentation and thus speed-up genome finishing. The proposed algorithm builds an extension graph where vertices...Want to Know which genome assembler rule the world ?
Started by Rahul Agarwal 4155 days ago Replies (3) Last reply by Rahul Nayak 2185 days agoAssemblathon 2: evaluating de novo methods of genome...Ra assembler - a de novo DNA assembler for third generation sequencing data
By biogeek 2556 days agogithub.com - Integration of the Ra assembler - a de novo DNA assembler for third generation sequencing data developed on Faculty of Electrical Engineering and Computing (FER), Ruder Boskovic Institute (RBI) and Genome Institute of Singapore (GIS). Ra is in...FinisherSC:a repeat-aware tool for upgrading de novo assembly using long reads
By Jit 2320 days agogithub.com - Here is the command to run the tool: python finisherSC.py destinedFolder mummerPath If you are running on server computer and would like to use multiple threads, then the following commands can generate 20 threads to run FinisherSC. python...NextDenovo: string graph-based de novo assembler for TGS long reads
By Jit 1817 days agogithub.com - NextDenovo is a string graph-based de novo assembler for TGS long reads. It uses a "correct-then-assemble" strategy similar to canu, but requires significantly less computing resources and storages. After assembly, the per-base error rate...ContigExtender: a new approach to improving de novo sequence assembly for viral metagenomics data
By LEGE 232 days agogithub.com - ContigExtender, was developed to extend contigs, complementing de novo assembly. ContigExtender employs a novel recursive Overlap Layout Candidates (r-OLC) strategy that explores multiple extending paths to achieve longer and highly accurate...Genomicus: genome browser that enables users to navigate in genomes in several dimensions
By Jit 2595 days agogenomicus.biologie.ens.fr - Genomicus is a genome browser that enables users to navigate in genomes in several dimensions: linearly along chromosome axes, transversaly across different species, and chronologicaly along evolutionary time. Once a query gene has been entered, it...Scripts for the analysis of HGT in genome sequence data.
By Jit 2584 days agogithub.com - Scripts for the analysis of HGT in genome sequence data
