Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

What is Population Genetics?01:25

What is Population Genetics?

64.7K
A population is composed of members of the same species that simultaneously live and interact in the same area. When individuals in a population breed, they pass down their genes to their offspring. Many of these genes are polymorphic, meaning that they occur in multiple variants. Such variations of a gene are referred to as alleles. The collective set of all the alleles within a population is known as the gene pool.
64.7K
Analysis of Population Pharmacokinetic Data01:12

Analysis of Population Pharmacokinetic Data

753
Analysis of population pharmacokinetic data involves studying the behavior of drugs within diverse populations to understand their pharmacokinetic parameters. Traditional pharmacokinetic methods typically involve collecting samples from a few individuals and estimating these parameters. While these methods are commonly used, they have limitations in capturing the variability in drug response among individuals or heterogeneous populations. Population pharmacokinetics is employed to address these...
753
Imaging Studies III: Computed Tomography01:27

Imaging Studies III: Computed Tomography

368
DefinitionComputed Tomography (CT) of the genitourinary (GU) tract is a non-invasive imaging modality that utilizes X-rays and computer processing to generate detailed cross-sectional images of the urinary system, encompassing the kidneys, ureters, bladder, and adjacent structures such as the adrenal glands.PurposeCT scans of the GU tract serve several diagnostic and therapeutic purposes, including:Diagnosis of Urinary Tract Diseases: Detects kidney stones, tumors, cysts, and congenital...
368
Locus of Control01:26

Locus of Control

219
Locus of control describes how individuals perceive the causes of events in their lives, influencing motivation and well-being. Introduced by Julian Rotter in 1954, it is categorized into internal and external locus of control.Internal Locus of ControlIndividuals with an internal locus of control believe their actions determine outcomes, fostering responsibility, self-efficacy, and motivation. For example, an employee may attribute career success to hard work. Research links this mindset to...
219
Root-Locus Method01:19

Root-Locus Method

514
A cruise control system in a car is designed to maintain a specified speed automatically by adjusting the gas pedal. The system continuously measures the vehicle's speed and makes fine adjustments to the pedal to achieve this goal. The root locus method is particularly useful for understanding how the cruise control system's behavior changes under varying conditions, such as when the car goes uphill, downhill, or faces strong wind resistance.
This system can be represented by a block...
514
Construction of Root Locus01:15

Construction of Root Locus

418
The construction of a root locus involves several key steps to analyze and visualize the behavior of a system's poles with varying gain. The number of branches in the root locus equals the number of closed-loop poles and is symmetrical about the real axis.
For positive gain values, the root locus exists on the real axis to the left of an odd number of finite open-loop poles or zeros. The root locus starts at the open-loop poles and traces the paths of the closed-loop poles as the gain...
418

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

The Vertebrate Genomes Project Phase I: A global reference genome resource.

bioRxiv : the preprint server for biology·2026
Same author

Investigating the mobility and host range of mobile genetic elements harbouring antimicrobial resistance genes in enterococci.

Microbiology (Reading, England)·2026
Same author

Automated eDNA and eRNA profiling for biodiversity monitoring in marine and freshwater ecosystems.

Scientific reports·2026
Same author

A large-effect locus underlies migration timing in North American Atlantic salmon (Salmo salar).

Scientific reports·2026
Same author

Effect of bedrest on the human gut and oral microbiome: implications for frailty.

Experimental gerontology·2026
Same author

Comparison of Spatio-Temporal Dynamics and Composition in Size-Fractionated and Unfractionated Northwestern Atlantic Microbial Communities.

Environmental microbiology reports·2026

Related Experiment Video

Updated: Feb 4, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.8K

RADProc: A computationally efficient de novo locus assembler for population studies using RADseq data.

Praveen Nadukkalam Ravindran1, Paul Bentzen2, Ian R Bradbury3

  • 1Faculty of Computer Science, Dalhousie University, Halifax, Nova Scotia, Canada.

Molecular Ecology Resources
|October 13, 2018
PubMed
Summary
This summary is machine-generated.

RADProc software accelerates de novo RADseq assembly by using a graph structure to efficiently identify genetic loci. This new tool significantly reduces computational time for genotyping without compromising locus accuracy.

Keywords:
RADseqde novo locus formationpopulation genomics

More Related Videos

A Strategy to Identify de Novo Mutations in Common Disorders such as Autism and Schizophrenia
05:51

A Strategy to Identify de Novo Mutations in Common Disorders such as Autism and Schizophrenia

Published on: June 15, 2011

26.4K
De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data
08:23

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data

Published on: February 18, 2022

4.2K

Related Experiment Videos

Last Updated: Feb 4, 2026

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies
12:08

Hybrid De Novo Genome Assembly for the Generation of Complete Genomes of Urinary Bacteria using Short- and Long-read Sequencing Technologies

Published on: August 20, 2021

5.8K
A Strategy to Identify de Novo Mutations in Common Disorders such as Autism and Schizophrenia
05:51

A Strategy to Identify de Novo Mutations in Common Disorders such as Autism and Schizophrenia

Published on: June 15, 2011

26.4K
De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data
08:23

De novo Identification of Actively Translated Open Reading Frames with Ribosome Profiling Data

Published on: February 18, 2022

4.2K

Area of Science:

  • Genomics
  • Bioinformatics
  • Population Genetics

Background:

  • Restriction site-associated DNA sequencing (RADseq) is vital for genotyping but faces challenges in locus identification and read assignment.
  • Optimizing de novo RADseq assembly parameters is computationally intensive and data-dependent.

Purpose of the Study:

  • Introduce RADProc, a novel software package designed to enhance the efficiency of de novo RADseq assembly.
  • Improve the speed and reduce the computational cost of identifying genetic loci from RADseq data.

Main Methods:

  • RADProc utilizes a graph data structure to represent sequence reads and their relationships, avoiding redundant similarity calculations.
  • Employs a clustering approach for rapid nucleotide-distance computation.
  • Enables efficient parameter sweeps by performing de novo locus formation on a precomputed graph.

Main Results:

  • RADProc demonstrated significantly faster processing times compared to Stacks software across multiple parameter settings and datasets.
  • For green crab samples, RADProc completed in 2 hr 40 min versus Stacks' 78 hr.
  • For brown trout samples, RADProc took 23 hr compared to Stacks' 263 hr.
  • Loci identification and downstream analysis results were comparable between RADProc and Stacks, indicating no loss of accuracy.

Conclusions:

  • RADProc offers a substantial improvement in processing speed for de novo RADseq assembly.
  • The software provides an efficient alternative for genotyping and population genetics studies.
  • RADProc's performance suggests it is a valuable tool for researchers working with large RADseq datasets.