bioRxiv has a dedicated section for negative results. Use it. Share negative results. Your colleagues will appreciate it.

SeuratExtend: streamlining single-cell RNA-seq analysis through an integrated and intuitive framework. #SingleCell #scRNAseq #Bioinformatics GigaScience academic.oup.com/gigascience/ar…

⚡️Thrilled that #VirtualLab is published in nature! nature.com/articles/s4158… We created a team of AI agents to mirror my Stanford lab🤖. Led by a PI agent, the AI scientists ran their own group meetings and discovered effective binders to new CoVID variants that we validated.

Nanopore full length 16S rRNA gene sequencing increases species resolution in bacterial biomarker discovery. #FullLength16S #rRNA #Nanopore #Sequencing #Genomics Oxford Nanopore Scientific Reports nature.com/articles/s4159…

🧩 [r_tip] - ¿Querés que tus visualizaciones cobren vida? Con el paquete {gganimate} podés crear animaciones sobre gráficos ggplot2 y mostrar transiciones, evolución temporal o cambios por categoría. ✔️ Extiende ggplot2 con funciones intuitivas (transition_*, enter_*, exit_*)

Journals can’t find peer reviewers. Preprints aren’t taken seriously. Garbage papers slip through peer review. Meantime, AI is slowly taking over. Nature describes the current situation. I highly recommend reading the article. 📍 The summary (+ my comments): 1. We are facing a

We often talk about pangenome reference but what does "reference" mean? If it means the whole graph, what is a variant? My collaborators Pouria and Luke give a clean answer: the reference is a spanning tree including GRCh38 and variants are leftover edges. See preprint for more.

Targeted decontamination of sequencing data with CLEAN. #SequencingData #DataDecontamination #NARgenomicsAndBioinformatics #Bioinformatics #Genomics academic.oup.com/nargab/article…

Universal orthologs infer deep phylogenies and improve genome quality assessments. #Orthologs #Phylogenies #GenomeQualityAssessment #Bioinformatics @BMCbiology bmcbiol.biomedcentral.com/articles/10.11…

Want to visualize between-group comparisons with added statistical insights? The ggbetweenstats() function from the ggstatsplot package is designed for exactly that. It combines violin and box plots to show group distributions while seamlessly including statistical test results

FANTASIA's paper is finally out! Check it out if you're interested in alternative methods to homology for functional annotation in nonmodel organisms 🦐🐙🪱🧬🐝🪲 Gemma Martínez Redondo [email protected] Institute of Evolutionary Biology (IBE) Centro Andaluz de Biología del Desarrollo LifeHUB.CSIC Customer Systems Inc nature.com/articles/s4200…

Applied HPC with R book-hpc.ggvy.cl #rstats

"Only ~0.02%-3.1% of [a cell's] genome" is being transcribed at any given moment. Other interesting takeaways from this new paper: > If you pool together a bunch of cells of the SAME type (like primary immune cells from a mouse's spleen), and you measure the transcription for

Efficient and accurate search in petabase-scale sequence repositories nature.com/articles/s4158… 🧬🖥️🧪 MetaGraph: metagraph.ethz.ch Code: github.com/ratschlab/meta…

Nature Methods: Choose your human genome reference wisely nature.com/articles/s4159…

Metalog: curated and harmonised contextual data for global metagenomics samples | Nucleic Acids Research | Oxford Academic academic.oup.com/nar/advance-ar…

PRIME: a database for 16S rRNA microbiome data with phenotypic reference and comprehensive metadata | Nucleic Acids Research | Oxford Academic academic.oup.com/nar/advance-ar…

Benchmarking large-scale single-cell RNA-seq analysis biorxiv.org/content/10.110…

[novel tool] EasyAmplicon 2: Expanding PacBio and Nanopore Long Amplicon Sequencing Analysis Pipeline for Microbiome. EasyAmplicon 2 is a user-friendly pipeline that embraces data analysis and visualization options for data obtained from various sequencing technologies (Illumina,

MicrobialScope: an integrated genomic resource with rich annotations across bacteria, archaea, fungi, and viruses | Nucleic Acids Research | Oxford Academic academic.oup.com/nar/advance-ar…