We are happy to release our new Special Section on de novo Gene evolution!

Special Section: de novo Gene
🔗 https://academic.oup.com/gbe/pages/special-section-de-novo-gene

Edited by Li Zhao, Claudio Casola, Victor Luria, and Nikolaos Vakirlis, the collection aggregates eight contributions that address how new genes emerge from noncoding sequences, persist through evolutionary time, and integrate into functional cellular networks.

#genome #evolution #denovo

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

1) me looking at the "manta" manual: "A post-processing script can be applied to the multi-sample vcf and detects SVs that have inheritance conflicts among a trio sample set." https://github.com/Illumina/manta/blob/master/docs/userGuide/README.md#de-novo-calling Cool !

2) and me looking a the script: that is 'just' a basic denovo detector only using the FORMAT/GT field and no other metrics... 🤨

https://github.com/Illumina/manta/blob/master/src/python/libexec/denovo_scoring.py#L27

#manta #sv #denovo

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/denovotranscript v1.0.0 - nf-core/denovotranscript v1.0.0!

Please see the changelog: https://github.com/nf-core/denovotranscript/releases/tag/1.0.0

#denovo-assembly #rna-seq #transcriptome #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.3.1 - nf-core/bacass v2.3.1!

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.3.1

#assembly #bacterial-genomes #denovo #denovo-assembly #genome-assembly #hybrid-assembly #nanopore #nanopore-sequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.3.0 - !

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.3.0

#assembly #bacterial-genomes #denovo #denovo-assembly #genome-assembly #hybrid-assembly #nanopore #nanopore-sequencing #nfcore #openscience #nextflow #bioinformatics

Pipeline release! nf-core/bacass v2.2.0 - !

Please see the changelog: https://github.com/nf-core/bacass/releases/tag/2.2.0

#assembly #bacterial-genomes #denovo #denovo-assembly #genome-assembly #hybrid-assembly #nanopore #nanopore-sequencing #nfcore #openscience #nextflow #bioinformatics

Raphael Gastrock looks at ways to distinguish adaptation from de novo learning using electroencephalography. Unfortunately we haven't found clear markers of de novo learning yet. Where do you think we should look? Come tell us!

#sfn23 #EEG #DeNovo #Adaptation PSTR216.27 Monday morning

https://www.abstractsonline.com/pp8/#!/10892/presentation/33598

https://deniseh.lab.yorku.ca/files/2023/11/Gastrock-SfN-2023.pdf