#genomeassembly — Public Fediverse posts

Pipeline release! nf-core/bacass v2.6.0 - nf-core/bacass v2.6.0 - Crimson Titanium Seahorse!
Simple bacterial assembly and annotation pipeline
Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.6.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.6.0 - nf-core/bacass v2.6.0 - Crimson Titanium Seahorse!
Simple bacterial assembly and annotation pipeline
Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.6.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Just wrapped up the “Plant Genome Sequence Assembly and Annotation” course 🌱
Participants dove deep into: processing long-read data, building a genome sequence from scratch, checking assembly quality, and predicting genes. Thanks to everyone who joined and contributed — excited to watch your future discoveries!

https://www.izmb.uni-bonn.de/en/pbb/news#d2025c1

#Genomics #PlantScience #Bioinformatics #GenomeAssembly

@PuckerLab @samnm

Just wrapped up the “Plant Genome Sequence Assembly and Annotation” course 🌱
Participants dove deep into: processing long-read data, building a genome sequence from scratch, checking assembly quality, and predicting genes. Thanks to everyone who joined and contributed — excited to watch your future discoveries!

https://www.izmb.uni-bonn.de/en/pbb/news#d2025c1

#Genomics #PlantScience #Bioinformatics #GenomeAssembly

@PuckerLab @samnm

My internship experience with assembling genomes and annotating them during a 6 week internship at Freiburg Galaxy.
https://galaxyproject.org/news/2025-07-22-ming-li-internship/

@galaxyfreiburg
#UseGalaxy #GalaxyProject #EOSC #Bioinformatics #Genomics #GenomeAssembly #GenomeAnnotation #TrainingProgram #Internship #Journey #internship #OpenScience #ComputationalBiology #DataScience #ResearchExperience #NextGenScientists

My internship experience with assembling genomes and annotating them during a 6 week internship at Freiburg Galaxy.
https://galaxyproject.org/news/2025-07-22-ming-li-internship/

@galaxyfreiburg
#UseGalaxy #GalaxyProject #EOSC #Bioinformatics #Genomics #GenomeAssembly #GenomeAnnotation #TrainingProgram #Internship #Journey #internship #OpenScience #ComputationalBiology #DataScience #ResearchExperience #NextGenScientists

My internship experience with assembling genomes and annotating them during a 6 week internship at Freiburg Galaxy.
https://galaxyproject.org/news/2025-07-22-ming-li-internship/

@galaxyproject
#UseGalaxy #GalaxyProject #EOSC #UniFreiburg #Bioinformatics #Genomics #GenomeAssembly #GenomeAnnotation #TrainingProgram #Internship #Journey #internship #OpenScience #ComputationalBiology #DataScience #ResearchExperience #NextGenScientists

My internship experience with assembling genomes and annotating them during a 6 week internship at Freiburg Galaxy.
https://galaxyproject.org/news/2025-07-22-ming-li-internship/

@galaxyproject
#UseGalaxy #GalaxyProject #EOSC #UniFreiburg #Bioinformatics #Genomics #GenomeAssembly #GenomeAnnotation #TrainingProgram #Internship #Journey #internship #OpenScience #ComputationalBiology #DataScience #ResearchExperience #NextGenScientists

Pipeline release! nf-core/bacass v2.5.0 - nf-core/bacass v2.5.0!

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.5.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.5.0 - nf-core/bacass v2.5.0!

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.5.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/genomeassembler v1.1.0 - 1.1.0 - Aluminium Pigeon 'Brass Pigeon'!

Please see the changelog: https://github.com/nf-core/genomeassembler/releases/tag/1.1.0

#genomeassembly #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/genomeassembler v1.1.0 - 1.1.0 - Aluminium Pigeon 'Brass Pigeon'!

Please see the changelog: https://github.com/nf-core/genomeassembler/releases/tag/1.1.0

#genomeassembly #nfcore #openscience #nextflow #bioinformatics

Melbourne Bioinformatics is hosting a FREE workshop on Hybrid de novo genome assembly using Galaxy. Save the date: Thursday, 5 June 2025, 1:00 PM - 4:00 PM AEST at 21 Bedford Street North Melbourne, VIC 3051. #GenomeAssembly #Bioinformatics
https://www.eventbrite.com.au/e/hybrid-de-novo-genome-assembly-nanopore-and-illumina-using-galaxy-tickets-1232439251979?aff=oddtdtcreator

Melbourne Bioinformatics is hosting a FREE workshop on Hybrid de novo genome assembly using Galaxy. Save the date: Thursday, 5 June 2025, 1:00 PM - 4:00 PM AEST at 21 Bedford Street North Melbourne, VIC 3051. #GenomeAssembly #Bioinformatics
https://www.eventbrite.com.au/e/hybrid-de-novo-genome-assembly-nanopore-and-illumina-using-galaxy-tickets-1232439251979?aff=oddtdtcreator

Super cool paper (part of PhD thesis): I thought assembling the genome from raw signal isn't practical, but it seems not possible, but yielding results comparable/better to usual approaches: basecalling followed by de novo genome assembly!
#nanopore #GenomeAssembly
https://arxiv.org/pdf/2410.17801
https://arxiv.org/html/2503.02997v1#Ch7

Super cool paper (part of PhD thesis): I thought assembling the genome from raw signal isn't practical, but it seems not possible, but yielding results comparable/better to usual approaches: basecalling followed by de novo genome assembly!
#nanopore #GenomeAssembly
https://arxiv.org/pdf/2410.17801
https://arxiv.org/html/2503.02997v1#Ch7

Pipeline release! nf-core/genomeassembler v1.0.1 - 1.0.1 - Aluminium Pigeon!

Please see the changelog: https://github.com/nf-core/genomeassembler/releases/tag/1.0.1

#genomeassembly #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/genomeassembler v1.0.1 - 1.0.1 - Aluminium Pigeon!

Please see the changelog: https://github.com/nf-core/genomeassembler/releases/tag/1.0.1

#genomeassembly #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.4.0 - v2.4.0!

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.4.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.4.0 - v2.4.0!

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.4.0

#assembly #bacterialgenomes #denovo #denovoassembly #genomeassembly #hybridassembly #nanopore #nanoporesequencing #nfcore #openscience #nextflow #bioinformatics

This week we are super excited to learn all about #GenomeAssembly using #longreads @Pacbio
data with Marcela Joao and 28 attendees from different parts of the 🌎🌍

This week we are super excited to learn all about #GenomeAssembly using #longreads @Pacbio
data with Marcela Joao and 28 attendees from different parts of the 🌎🌍

🧬 Ready to dive into cutting-edge genome assembly using @PacBio data?
Join us this October for an immersive learning experience. Hurry, only 3 seats remain!

🔗 Register now:
https://physalia-courses.org/courses-workshops/pacbio/

#Bioinformatics #Genomics #GenomeAssembly

🧬 Ready to dive into cutting-edge genome assembly using @PacBio data?
Join us this October for an immersive learning experience. Hurry, only 3 seats remain!

🔗 Register now:
https://physalia-courses.org/courses-workshops/pacbio/

#Bioinformatics #Genomics #GenomeAssembly

New paper from my old group:

Long-read genome assemblies of 33 species of eucalypt (gum tree) from across Australia, encompassing ~70My of evolution. Key finding: macrosynteny is preserved, but microsynteny rampantly disrupted. Cool result given the propensity for inter-specific hybridization and gene flow.

Preprint here: https://www.biorxiv.org/content/10.1101/2023.04.19.537464v1
Feel free to reach out with any Q's!

#preprint #genome #trees #eucalyptus #genomics #genomeassembly #biorxiv #botany #synteny #structuralvariation

📢Interested in #GenomeAssembly using @PacBio #longreads?

Have a look at the 4th edition of our course with these two amazing instructors @MahUliano & @FerreiranunesJ

🔗https://physalia-courses.org/courses-workshops/pacbio/

#Bioinformatics #Genomics

📢Interested in #GenomeAssembly using @PacBio #longreads?

Have a look at the 4th edition of our course with these two amazing instructors @MahUliano & @FerreiranunesJ

🔗https://physalia-courses.org/courses-workshops/pacbio/

#Bioinformatics #Genomics

Really exceptional level of knowledge on @nanopore showed by @Amandatron89 & @NatalieAnneRing .

Hope everyone has enjoyed this week as much as we did!

Good luck with your own data😊

#Genomics #GenomeAssembly #Bioinformatics

Really exceptional level of knowledge on @nanopore showed by @Amandatron89 & @NatalieAnneRing .

Hope everyone has enjoyed this week as much as we did!

Good luck with your own data😊

#Genomics #GenomeAssembly #Bioinformatics

We are thrilled to kick off the 2nd edition of the Genome Assembly and Annotation course with Giulio, Guido, Marcella and Linelle

#Bioinformatics #Genomics #GenomeAssembly

We are thrilled to kick off the 2nd edition of the Genome Assembly and Annotation course with Giulio, Guido, Marcella and Linelle

#Bioinformatics #Genomics #GenomeAssembly

Opinion piece on metric set for evaluation of genome assembly quality #genome #genomics #genomeassembly #TIGS #TrendsInGenetics https://www.cell.com/trends/genetics/fulltext/S0168-9525(22)00253-0

Opinion piece on metric set for evaluation of genome assembly quality #genome #genomics #genomeassembly #TIGS #TrendsInGenetics https://www.cell.com/trends/genetics/fulltext/S0168-9525(22)00253-0

Great session about #GenomeAssembly using short Illumina and long-reads @PacBio @nanopore by @Passdan on this day3 of the Winter School in Bioinformatics

If you want to learn more about these topics, have a look at our courses below:

1. Genome Assembly and Annotation with @giulio_formenti
and @GuidoRGallo

https://www.physalia-courses.org/courses-workshops/course20/

2. Genome Assembly using @nanopore with @Amandatron89 and @NatalieAnneRing https://www.physalia-courses.org/courses-workshops/course59/

Great session about #GenomeAssembly using short Illumina and long-reads @PacBio @nanopore by @Passdan on this day3 of the Winter School in Bioinformatics

If you want to learn more about these topics, have a look at our courses below:

1. Genome Assembly and Annotation with @giulio_formenti
and @GuidoRGallo

https://www.physalia-courses.org/courses-workshops/course20/

2. Genome Assembly using @nanopore with @Amandatron89 and @NatalieAnneRing https://www.physalia-courses.org/courses-workshops/course59/

A proposed #metric set for #evaluation of #genome #assembly #quality. #GenomeAssembly #QualityMetric @TrendsGenetics

#bioinformatics

https://www.cell.com/trends/genetics/fulltext/S0168-9525(22)00253-0

Many thanks to our amazing instructors Marcela
& Joao and all attendees for joining us for this fun and productive #GenomeAssembly #Bioinformatics week!

Very happy to kick off the 3rd edition of the Eukaryotic Genome Assembly using Pacbio and HI-C with our 🇧🇷 superstars Marcela
& Joao

#Genomics #Bioinformatics #GenomeAssembly

Hello everyone! Here is my #introduction.

I'm a #bioinformatics manager at the Canadian Centre for Computational Genomics (C3G), based in #McGill University.

Most recently, I helped coordinate the bioinformatics analysis for the #COVID19 sequencing effort in the province of Quebec. Additionally, I have experience in #transcriptomics, #GenomeAssembly and #OxfordNanopore, among other things.

Excited to give this new platform a try, so far, so good!