BioStar
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BioGPS
By Anjana 3106 days agobiogps.org - A free extensible and customizable gene annotation portal, a complete resource for learning about gene and protein function. http://biogps.org/#goto=welcomePolyPhen-2: Prediction of functional effects of human nsSNPs
By Anjana 3106 days agogenetics.bwh.harvard.edu - PolyPhen-2 (Polymorphism Phenotyping v2) is a tool which predicts possible impact of an amino acid substitution on the structure and function of a human protein using straightforward physical and comparative considerations.CSBFinder: Discovery of colinear syntenic blocks across thousands of prokaryotic genomes
By Jit 2221 days agogithub.com - CSBFinder is a standalone Desktop java application with a graphical user interface, that can also be executed via command line. CSBFinder implements a novel methodology for the discovery, ranking, and taxonomic distribution analysis of colinear...HairSplitter: assembling long reads in an unknown number of haplotypes
By BioStar 717 days agohal.archives-ouvertes.fr - Pros and cons of HairSplitter Limitations of HairSplitter: Not very fast: it re-polishes the whole assembly Limited in the number of haplotypes Strengths of HairSplitter: Very modular, can be used with any assembler Naive: makes no...Protein function annotation and machine learning - UPMC - Paris, France
Protein function annotation and machine learning - UPMC - Paris, France Job Description: We are interested in finding an excellent postdoc with interests in protein functional annotation, machine learning and computer grids. The position is open...flo
By Jitendra Narayan 3208 days agogithub.com - flo - same species annotations lift over pipeline Lift over is the process of transferring annotations from one genome assembly to another. Usually lift over is done because there is a new, improved genome assembly for the species and good quality...RASTtk : algorithm for building custom annotation pipelines and annotating batches of genomes
By Abhi 3131 days agohttp://rast.nmpdr.org/ - The RAST (Rapid Annotation using Subsystem Technology) annotation engine was built in 2008 to annotate bacterial and archaeal genomes. It works by offering a standard software pipeline for identifying genomic features (i.e., protein-encoding genes...Prokka: tool for the rapid annotation of prokaryotic genomes
By Jit 2819 days agowww.vicbioinformatics.com - Prokka is a software tool for the rapid annotation of prokaryotic genomes. A typical 4 Mbp genome can be fully annotated in less than 10 minutes on a quad-core computer, and scales well to 32 core SMP systems. It produces GFF3, GBK and SQN files...Genome Annotation Transfer Utility (GATU)
By Jit 2735 days agovirology.uvic.ca - Genome Annotation Transfer Utility (GATU) was designed to facilitate quick, efficient annotation of similar genomes using genomes that have already been annotated. For example, whenever a new strain of SARS coronavirus is sequenced, it is possible,...PASA: Gene Structure Annotation and Analysis
By biogeek 2523 days agopasapipeline.github.io - PASA, acronym for Program to Assemble Spliced Alignments, is a eukaryotic genome annotation tool that exploits spliced alignments of expressed transcript sequences to automatically model gene structures, and to maintain gene structure annotation...
