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