Topics

Sequenceserver: a modern graphical user interface for custom BLAST databases.

08:00 EDT 14th August 2019 | BioPortfolio

Summary of "Sequenceserver: a modern graphical user interface for custom BLAST databases."

Comparing newly obtained and previously known nucleotide and amino-acid sequences underpins modern biological research. BLAST is a well-established tool for such comparisons but is challenging to use on new datasets. We combined a user-centric design philosophy with sustainable software development approaches to create Sequenceserver, a tool for running BLAST and visually inspecting BLAST results for biological interpretation. Sequenceserver uses simple algorithms to prevent potential analysis errors, and provides flexible text-based and visual outputs to support researcher productivity. Our software can be rapidly installed for use by individuals or on shared servers. Sequenceserver is AGPLv3-licensed at https://sequenceserver.com.

Affiliation

Journal Details

This article was published in the following journal.

Name: Molecular biology and evolution
ISSN: 1537-1719
Pages:

Links

DeepDyve research library

PubMed Articles [6170 Associated PubMed Articles listed on BioPortfolio]

FoldX 5.0: Working with RNA, small molecules and a new graphical interface.

A new version of FoldX, whose main new features allows running classic FoldX commands on structures containing RNA molecules and includes a module that allows parametrization of ligands or small molec...

A convenient tool for bivariate data analysis and bar graph plotting with R.

The Java software jBar consists of a graphical user interface that allows the user to customize and assemble an included script for R. The scripted R pipeline calculates means and standard errors/devi...

Graphical user interface for an easy and reliable construction of input files to CP2K.

Creating input files to atomistic simulations and quantum chemical calculations in the CP2K software package can be a challenge. Here, we present a new graphical user interface to reduce the complexit...

CodonWizard - An intuitive software tool for customizable codon optimization in protein expression efforts with graphical user interface.

Optimization of coding sequences to maximize protein expression yield is often outsourced to external service providers during oligonucleotide synthesis and thus remains a black box for many researche...

BDBM 1.0: A Desktop Application for Efficient Retrieval and Processing of High-Quality Sequence Data and Application to the Identification of the Putative Coffea S-Locus.

Nowadays, bioinformatics is one of the most important areas in modern biology and the creation of high-quality scientific software supporting this recent research area is one of the core activities of...

Clinical Trials [1428 Associated Clinical Trials listed on BioPortfolio]

Human Factors Study to Validate the User Interface of TOBI Podhaler Using Placebo Capsules

The purpose of this study is to validate the user interface of TOBI Podhaler by establishing that the product can support safe and effective use for the intended users

Evaluate Ease of Use and Surgeons Opinions of Presygen™/Si-1

This study is designed to evaluate the information provided to the clinicians by the surgical imaging device. It is also to gain insight on the user interface and how "user friendly" it is...

Innovative Biofeedback Interface for Enhancing Stroke Gait Rehabilitation

This study will conduct a preliminary evaluation of and obtain user data on a novel game-based visual interface for stroke gait training. Study participants will complete one session compr...

Brain Fitness APP for Cognitive Enhancement

Memory and cognitive declines are associated with normal brain aging but are also precursors to dementia, in particular the so called the pandemic of the century, Alzheimer's disease. Whil...

A Pilot Study of the Utility of 3D Printed Masks for ALS Subjects

Non-invasive ventilation (NIV) is an important therapy for patients with a number of neurological diseases. Specifically, NIV has been shown to be an effective treatment for people with am...

Medical and Biotech [MESH] Definitions

The portion of an interactive computer program that issues messages to and receives commands from a user.

A microcomputer-based software package providing a user-friendly interface to the MEDLARS system of the National Library of Medicine.

Databases devoted to knowledge about specific chemicals.

Databases devoted to knowledge about specific genes and gene products.

Databases containing information about NUCLEIC ACIDS such as BASE SEQUENCE; SNPS; NUCLEIC ACID CONFORMATION; and other properties. Information about the DNA fragments kept in a GENE LIBRARY or GENOMIC LIBRARY is often maintained in DNA databases.

Quick Search


DeepDyve research library

Relevant Topic

Biological Therapy
Biological therapy involves the use of living organisms, substances derived from living organisms, or laboratory-produced versions of such substances to treat disease. Some biological therapies for cancer use vaccines or bacteria to stimulate the body&rs...


Searches Linking to this Article