GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies.
GRASS (GeneRic ASsembly Scaffolder)-a novel algorithm for scaffolding second-generation sequencing assemblies cap...of using diverse information sources. GRASS offers a mixed-integer prog...on-maximization procedure and an unconstrained binary quadratic programm...2598 days ago
SIMBA: a web tool for managing bacterial genome assembly generated by Ion PGM sequencing technology
...st bioinformaticians to assemble bacterial genomes sequenced with NextGeneration Sequencing (NGS) platform...ely downloaded, shared and modified. https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-...2598 days ago
Grinder / Biogrinder - A versatile omics shotgun and amplicon sequencing read simulator
Grinder is a versatile program to create random shotgun and amplicon sequence libraries based on DNA, RNA or proteic refere...nder can produce genomic, metagenomic, transcriptomic, metatranscriptomi...ed datasets can be used to test the accuracy of bioinformatic tools unde...2597 days ago
SuRankCo: supervised ranking of contigs in de novo assemblies
SuRankCo is a machine learning based software to score and rank contigs from de novo assemblies of next generation sequencing data. It trains with alignments of con...with known reference genomes and predicts scores and ranking for contigs which have n...2597 days ago
AVID: A Global Alignment Program
...d is designed to be fast, memory efficient, and practical for sequence alignments...We present numerous applications of the method, ranging from the comparison of a...e alignment comparisons, as well as the AVID program, are publicly available. See...2597 days ago
Synteny Portal: a web-based application portal for synteny block analysis
...y-to-use web-based interface. We believe that Synteny Portal will serve as a highly valuable tool that will enable biologists to easily perform comparative genomics studies by compe...2596 days ago
dbCAN: a web server and DataBase for automated Carbohydrate-active enzyme ANnotation
...nd DataBase for automated Carbohydrate-active enzyme ANnotati...ase and CAT. All data in dbCAN are generated based on the family classi...se created new families based on latest literature.2592 days ago
Genome Annotation Transfer Utility (GATU)
Genome Annotation Transfer Utility (GATU) was designed to...tated. For example, whenever a new strain of SARS coronavirus is sequ...to automatically annotate the new strain using a previously-annotate...he reference genome (the annotated strain) to the new sequence (the u...2592 days ago
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