BioStar
Bioinformatician
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- BioStar on Sibelia: A comparative genomics tool (1487 days ago): Basic usage =========== In this manual it is assumed that "Sibelia" is...
- BioStar on AutoDock Vina: an open-source program for doing molecular docking. (1624 days ago): AutoDockFR (or ADFR in short) is a protein-ligand docking...
- BioStar on AutoDock Vina: an open-source program for doing molecular docking. (1624 days ago): QVina-W, a new docking tool particularly useful for wide search space,...
- BioStar on Nextflow: Data-driven computational pipelines (1738 days ago): A Review of Scalable Bioinformatics Pipelines by Bjørn Fjukstad &...
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The wavefront alignment (WFA) algorithm
By BioStar 1609 days agogithub.com - The wavefront alignment (WFA) algorithm is an exact gap-affine algorithm that takes advantage ofhomologous regions between the sequences to accelerate the alignment process. As opposed to traditional dynamic programming algorithms that run in...VirtualFlow: a versatile, parallel workflow platform for carrying out virtual screening
By BioStar 1624 days agohttps://virtual-flow.org/ - related tasks on Linux-based computer clusters of any type and size which are managed by a batchsystem (such as SLURM). Currently, there exist two versions of VirtualFlow, which are tailored to different types of tasks: VFLP:...AutoDock Vina: an open-source program for doing molecular docking.
By BioStar 1624 days ago Comments (2)http://vina.scripps.edu/ - AutoDock Vina is an open-source program for doing molecular docking. It was designed and implemented by Dr. Oleg Trott in the Molecular Graphics Lab at The Scripps Research Institute. It is especially effective for protein-ligand...gggenes: a ggplot2 extension for drawing gene arrow maps.
By BioStar 1635 days agohttp://wilkox.org/gggenes - Install the stable version of gggenes from CRAN: install.packages("gggenes") If you want the development version, install it from GitHub: devtools::install_github("wilkox/gggenes") More at https://github.com/wilkox/gggenesGenobuntu: Package for Next Generation Sequencing and Genome Assembly
By BioStar 1650 days agosourceforge.net - Genobuntu is a software package containing more than 70 software and packages oriented towards NGS. In its current version, Genobuntu supports pre assembly tools, genome assemblers as well as post assembly tools.Commonly used biological software and...medaka: Sequence correction provided by ONT Research
By BioStar 1650 days agogithub.com - medaka is a tool to create a consensus sequence from nanopore sequencing data. This task is performed using neural networks applied from a pileup of individual sequencing reads against a draft assembly. It outperforms graph-based methods...HASLR: a hybrid assembler which uses both second and third generation sequencing reads
By BioStar 1664 days agogithub.com - HASLR, a hybrid assembler which uses both second and third generation sequencing reads to efficiently generate accurate genome assemblies. Our experiments show that HASLR is not only the fastest assembler but also the one with the lowest number of...WEGO : simple but useful tool for visualizing, comparing and plotting GO (Gene Ontology) annotation...
By BioStar 1686 days agowego.genomics.org.cn - WEGO (Web Gene Ontology Annotation Plot) is a simple but useful tool for visualizing, comparing and plotting GO (Gene Ontology) annotation results. As the GO vocabulary became more and more popular, WEGO was widely adopted and used in many...CSAR-web: a web server of contig scaffolding using algebraic rearrangements
By BioStar 1688 days agogenome.cs.nthu.edu.tw - CSAR-web is a web-based tool that allows the users to efficiently and accurately scaffold (i.e. order and orient) the contigs of a target draft genome based on a complete or incomplete reference genome from a related organism. CSAR-web can...Dahak: benchmarking and containerization of tools for analysis of complex non-clinical metagenomes.
By BioStar 1689 days agogithub.com - Dahak is a software suite that integrates state-of-the-art open source tools for metagenomic analyses. Tools in the dahak software suite will perform various steps in metagenomic analysis workflows including data pre-processing, metagenome assembly,...
