A brief 1 minute lightning talk giving an overview of my poster on Bactopia, a pipeline for the complete analysis of bacterial bactopia ABPHM Lightning Talk - Using Bactopia to process 67,000 Staphylococcus aureus genomes with AWS Batch
Bactopia v3 - enhancements for public health genomic surveillance. Robert Petit, Senior Bioinformatics Scientist at Wyoming Whole Genome Sequence Analysis | Bacterial Genome Analysis | Bioinformatics 101 for Beginners
Ragout - A reference-assisted assembly tool for bacterial genomes - Mikhail Kolmogorov - ISMB 2014. Nextflow v25 Broke Bactopia, So We Rewrote It Robert A Petit III - Senior Bioinformatics Scientist, Wyoming Public Health
Integrating Staphopia into your Staphylococcus aureus genomic investigations Bactopia is a flexible, Nextflow based, set of workflows for analysis of bacterial genomes. The default workflow is based on de-novo assembly. Hello everyone! Here is a short talk titled "Integrating Staphopia into Staphylococcus aureus genomic investigations". In this talk I
Day 9: morning session working on Bactopia with Peter Genomics-guided discovery of fungicidal bacteria - Matthew Biggs - MLCSB - ISMB 2020 Posters
Informatic Methods & Strategies: Parasite Genomes & Genomic Dark Matter by Mr Yuanting Introduction - Bioinformatics for Genomic Epidemiology March 2024 This is a brief 1 minute overview of Bactopia for the Bioinformatics Showcase at the 2023 APHBM conference.
This study evaluates four genomic analysis pipelines—Bactopia, Nullarbor, TORMES, and Nf-core/mag—for detecting antibiotic resistance genes ( nf-core/bytesize: variantcatalogue
Introduction to Cholera Case Study - Hands On Lorem Ipsum is simply dummy text of the printing and typesetting industry. Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of Bactopia is process your data with a broad set of tools. k-mer analysis with python: estimating the genome size from raw data [01]
Bactopia Overview - ABPHM Bioinformatics Showcase Introduction to DSL2 - Paolo Di Tommaso (Day 4_1) Ragout - A reference-assisted assembly tool for bacterial genomes - Mikhail Kolmogorov - ISMB 2014
Abstract Swine dysentery (SD) caused by Brachyspira hyodysenteriae results in economic losses in swine producing countries This week, Maxime Garcia (@MaxUlysse) will present: How nf-core configs work. This talk will cover: * Making your own Nextflow 2025 Bactopia for genomic epidemiology investigations
This is a video of pictures done by my 7 year old using Windows Paint program. Music by Pink - So What. bactopia/bactopia: A flexible pipeline for complete analysis - GitHub
In this video I provide a short overview of my poster presented at the SFA2F conference. This poster gives a preview for what you A genomic encyclopedia of bacteria and archaea (GEBA) Robert A. Petit III is giving an introduction to bactopia, a nextflow pipeline that is not part of nf-core but is using some of the nf-core
Nextflow Summit Boston 2023 - Robert Petit ftp://ftp.sra.ebi.ac.uk/vol1/fastq/SRR221/005/SRR22175105/SRR22175105_1.fastq.gz
On April 28th, 2022, I was invited to give a talk about Bactopia to the African Bioinformatics Network. In this talk, I provide a #Infra4Dev Conference 2022 | DAY 2 | Lightning Talks & Featured Paper Presentations
We've invited Robert Petit and Tim Read from Emory University to present on Bactopia, "an extensive workflow for processing Basic Bioinformatics: Overview of a Microbial DNA Variants Pipeline Designing mechanisms into Bactopia to support its users and contribute back to the community. Robert Petit, Senior
Day 9: morning session working on Bactopia coding with Peter part 2 Towards the Pangenome of banana
A talk by Jonathan Eisen given at a conference on "Genomes, Medicine and the Environment" in October 2007. The talk was Genomics-guided discovery of fungicidal bacteria - Matthew Biggs - MLCSB - ISMB 2020 Posters.
Production : TCHANA Valdo #cinema #africa #humour #music #happy. Solenne Correard introduces the nextflow pipeline variantcatalogue. Though not an nf-core pipeline (yet), variantcatalogue is
The JBrowse Genome Browser allows the user to view objects such as genes, variants, QTLs, and so forth in their genomic "Explore this detailed guide for microbiology and bioinformatics students, covering essential research methodologies for 08 Working with Nextflow DSL2 modules and Bactopia | Robert Petit
Roary pan genome tutorial | Bioinformatics tutorial on Pangenome analysis of bacterial genomes In this webinar, Dan Browne and PacBio Bioinformatics Field Application Scientist, presents on microbial assembly as our latest Keywords ### #ImageGenerator #desktopapplication #easilygenerate #generatecomparative #comparativegenomic
6 girls sing Justin Bieber's "Baby" Lightning Talks presented by Dan Cuellar #AppiumConf2021 Bacterial Analysis
Episode 7: Pathogens, Bactopia and awesome shirts How GitHub and Ersilia open sourced endemic disease research in low-and-middle-income countries
WMConf Lightning Talks - Official trailer (new series) Bacterial genomic diversity: Prof. Luis-Miguel Rodriguez-R, Catherine Brink and Diego Castillo Recording of the second webinar of the 2022 SASSB Webinar Series 5 May 2022 Theme: Bacterial genomic diversity Invited
20230324 Webinar: Go with the Workflow: NextflowDSL2 Basics With our physical Webmaster Conference events on hold, we are excited to bring you a new series featuring conference-style
A cannabis pan-genome This tutorial shows you how to analyze whole genome sequence of a bacterial genome. A bioinformatics tutorial on Bacterial
[Nextflow DSL2] Running a remote pipeline using Docker Unedited 1a audit Shelton PD 👍🏻
How nf-core configs work (nf-core/bytesize #2) Rob Lalonde of Seqera Labs interviews Robert Petit, a senior bioinformatics scientist at Wyoming Public Health Laboratory. In this Macee Video
Macee, Lexy, Phoebe, Modesta, Destiny and Kenzie singing Justin Bieber's "Baby". All the parents of these girls have given their Is It Worth Building a Custom WGS Analysis Pipeline When Bactopia JBrowse Genome Browser Video Tutorial
Nextflow Summit 2022 - Robert Petit Using Bactopia for the complete analysis of bacterial genomes Dan was selected to speak at Selenium Conference 2012 in London about an entirely different topic. As part of his presentation,
The code is The written tutorial is StaPH-B Monthly Webinar - May 2020 Presented: Thursday 4 August 2022 Presenter: Mr Yuanting Zheng Host: Prof. Robin Gasser VetSurgeon DVM PhD DVS
An overview of Bactopia for the Bioinformatics Showcase at the 2025 APHBM conference. Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial Genomes. mSystems. 5 (2020). Creators. Petit III, Robert A. ORCID icon · Read, BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons | RTCL.TV
Computational analysis pipelines are a key element of modern science but can be difficult to maintain or export to other systems, A demo of how we can share pipelines using: • GitHub to host the code and the configuration • Docker (or Singularity, or even Is Microbiology the NEW Gold Standard for Lab-based Research Projects?
Comparative Genomics of Tick-Transmitted Bacteria My 2021 Waite Research Institute Showcase video entry talking about my PhD research. Videos were required to be aimed at a
This episode of Basic Bioinformatics is a high level review of a bioinformatics pipeline for microbial DNA variants. We will assume Given that Bactopia is well-documented and actively maintained, would it still make sense to build my own pipeline from scratch? Or should I
If Bacteria were visible naked eye. Bactopia: a Flexible Pipeline for Complete Analysis of Bacterial
Day 4 - session 1 Talk: Introduction to DSL2 - Paolo di Tommaso | Seqera Labs. DAY 2, MARCH 4 | SESSION VII 00:00 - Lightning Talks: Sustainable Growth Moderated by Maria Vagliasindi, Lead Economist,
A step-by-step process of performing pangenome analysis using the tools Prokka and Roary. On bacteria genomes *Thank me Robert A Petit III: Nextflow v25 Broke Bactopia, So We Rewrote It
Epigenomics of Common Diseases: Methylation Risk Scores in childhood aeroallergen sensitization Bactopia is an open source system that can scale from projects as small as one bacterial genome to ones including thousands of genomes. SFA2F Poster - Bactopia v2: Highly scalable, portable and customizable bacterial genome analyses
This is a very brief Lightning Talk for a poster I'll presenting at ABPHM 2021. I this poster titled "Using Bactopia to process 67000 Introduction to Nextflow DLS2 with de novo assembly tutorial [keynote] CAB-KUIAS Internationall Series 2022 "Banana genomics and its application:Breeding and world current disease" Friday,
Bactopia Lightning Talk - Wellcome AMR - Genomes, Big Data and Emerging Technologies conference Bactopia is a flexible pipeline for complete analysis of bacterial genomes. Information Last Updated. at 08:29. License. MIT. Total Downloads. Bactopia: Introduction
GitHub's Skill-Based Volunteering Project Team and Ersilia, an AI non-profit, built an Actions solution that sped up machine Video recorded during the virtual Bioinfoskills for Microbial Genomics workshop - 02 Feb 2022. Nick Vereecke: Emergence of new multi-resistant bacteria strains revealed by high-quality WGS
Item - Optimizing ARG Detection in Lysimeter System: A Bactopia 2.1.0 - CQLS Software Update List
APRÈS BACC: épisode 11 Bioinformatics Lunch & Learn: Better Assemblies of Bacterial Genomes with Microbial Analysis nf-core/bytesize: bactopia & using nf-core components in non-nf-core pipelines
This is an unedited video of a 1a audit on the Shelton Police Department in Shelton Washington. This lightning talk introduces our poster on methylation risk scores in aeroallergen sensitization, which was presented on the
Bactopia is a flexible pipeline for complete analysis of bacterial genomes. The goal of Bactopia is to process your data with a broad set of tools. Bactopia Overview - ABPHM 2025 Bioinformatics Showcase
It is now relatively easy to obtain a high-quality draft genome sequence of a bacterium, but bioinformatic analysis requires organization and optimization