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