BioStar
Bioinformatician
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- BioStar on Sibelia: A comparative genomics tool (1485 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. (1622 days ago): AutoDockFR (or ADFR in short) is a protein-ligand docking...
- BioStar on AutoDock Vina: an open-source program for doing molecular docking. (1622 days ago): QVina-W, a new docking tool particularly useful for wide search space,...
- BioStar on Nextflow: Data-driven computational pipelines (1736 days ago): A Review of Scalable Bioinformatics Pipelines by Bjørn Fjukstad &...
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reads, genome, assembly, data, tool, sequence, sequencing, analysis, package, pipeline, genomic, Correction, Gene, Illumina, Breeding, Bioinformatics, Automated, learn, sequences, accurate, web, program, R, DNA, long, server, tools, alignment, Annotation, metagenomics, genomes, Visualization, error, ngs, PacBio, Ontology, RNA, biological, generation, open-source, software, Genomics, Hi-C, RNA-seq, tree, python, Training, identification, genes, free
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BioStar's bookmarks
mixtureS: a novel tool for bacterial strain reconstruction from reads
By BioStar 1553 days agowww.cs.ucf.edu - mixtureS that can de novo identify bacterial strains from shotgun reads of a clonal or metagenomic sample, without prior knowledge about the strains and their variations. Tested on 243 simulated datasets and 195 experimental datasets, mixtureS...SqueezeMeta: a fully automated metagenomics pipeline, from reads to bins
By BioStar 1557 days agogithub.com - SqueezeMeta is a full automatic pipeline for metagenomics/metatranscriptomics, covering all steps of the analysis. SqueezeMeta includes multi-metagenome support allowing the co-assembly of related metagenomes and the retrieval of individual genomes...SHAMAN: a user-friendly website for metataxonomic analysis from raw reads to statistical analysis
By BioStar 1557 days agogithub.com - SHAMAN is a shiny application for differential analysis of metagenomic data (16S, 18S, 23S, 28S, ITS and WGS) including bioinformatics treatment of raw reads for targeted metagenomics, statistical analysis and results visualization with a large...ClueGO: a Cytoscape plug-in that visualizes the non-redundant biological terms for large clusters...
By BioStar 1561 days agowww.ici.upmc.fr - ClueGO is a Cytoscape plug-in that visualizes the non-redundant biological terms for large clusters of genes in a functionally grouped network and it can be used in combination with GOlorize. The identifiers can be uploaded from a text file or...proActiv: Estimation of Promoter Activity from RNA-Seq data
By BioStar 1561 days agogithub.com - proActiv is an R package that estimates promoter activity from RNA-Seq data. proActiv uses aligned reads and genome annotations as input, and provides absolute and relative promoter activity as output. The package can be used to identify active...PyParanoid: a pipeline for rapid identification of homologous gene families in a set of genomes
By BioStar 1561 days agogithub.com - PyParanoid is a pipeline for rapid identification of homologous gene families in a set of genomes - a central task of any comparative genomics analysis. The "gold standard" for identifying homologs is to use reciprocal best hits (RBHs) which depends...PANNZER: a fully automated service for functional annotation of prokaryotic and eukaryotic proteins...
By BioStar 1561 days agoekhidna2.biocenter.helsinki.fi - PANNZER (Protein ANNotation with Z-scoRE) is a fully automated service for functional annotation of prokaryotic and eukaryotic proteins of unknown function. PANNZER (Protein ANNotation with Z-scoRE) is a fully automated service for...SEASTAR: Systematic Evaluation of Alternative STArt site in RNA
By BioStar 1561 days agogithub.com - SEASTAR (Systematic Evaluation of Alternative STArt site in RNA) is a software package for Transcription Start Site (TSS) identification and quantification using only RNA-seq data. It assembles novel TSSs based only on RNA-Seq data and merges them...PheWAS: R package is designed to provide an accessible interface to the phenome wide association...
By BioStar 1574 days agogithub.com - The PheWAS R package is designed to provide an accessible interface to the phenome wide association study. For a description of the methods available and some simple examples, please see the package vignette or the R documentation. For...Sequence Ontology Bioinformatics Analysis (SOBA) tool to provide a simple statistical and graphical...
By BioStar 1583 days agowww.sequenceontology.org - We have developed the Sequence Ontology Bioinformatics Analysis (SOBA) tool to provide a simple statistical and graphical summary of an annotated genome. We envisage its use during annotation jamborees, genome comparison and for use by developers...
