Emilio Rios
@emiliorios.bsky.social
🧬 Bioinformatics & Microbiome Research
💼 PhD candidate @TUM
🥋 Taekwondo & sports enthusiast
💼 PhD candidate @TUM
🥋 Taekwondo & sports enthusiast
Reposted by Emilio Rios
New Post: Your first production-grade pipeline (with a @nextflow.io example). A minimal definition + practical hardening steps (profiles, observability, smoke tests, versioning) with a runnable template!
#Bioinformatics #Nextflow #Reproducibility #ResearchSoftware
#Bioinformatics #Nextflow #Reproducibility #ResearchSoftware
Your first production-grade pipeline (with a Nextflow example)
A production-grade pipeline is not just “it runs once”—it is rerunnable, reproducible, portable across local/HPC, observable when it fails, tested with a fast smoke test, and versioned for defensible ...
www.reproducible-science.com
January 12, 2026 at 2:39 PM
New Post: Your first production-grade pipeline (with a @nextflow.io example). A minimal definition + practical hardening steps (profiles, observability, smoke tests, versioning) with a runnable template!
#Bioinformatics #Nextflow #Reproducibility #ResearchSoftware
#Bioinformatics #Nextflow #Reproducibility #ResearchSoftware
Reposted by Emilio Rios
1/2 New preprint: Oral→gut translocation in advanced chronic liver disease shows links to gut-barrier dysfunction and hepatic fibrosis. Thanks to the team & collaborators at KCH and Quadram. Preprint link: www.biorxiv.org/content/10.1...
Microbial oral-gut translocation in advanced chronic liver disease is linked to exacerbation of intestinal barrier dysfunction and hepatic fibrosis
While microbiome perturbations are associated with advanced chronic liver disease (ACLD), microbial disease mechanisms are poorly understood. Using multi-omics analyses of paired saliva and faecal sam...
www.biorxiv.org
October 20, 2025 at 11:38 AM
1/2 New preprint: Oral→gut translocation in advanced chronic liver disease shows links to gut-barrier dysfunction and hepatic fibrosis. Thanks to the team & collaborators at KCH and Quadram. Preprint link: www.biorxiv.org/content/10.1...
Reposted by Emilio Rios
Jaeger uses #DeepLearning to rapidly detect bacteriophage sequences in #metagenomes with high accuracy and 20× speed gain over existing methods - extracting over five million #phage contigs from MGnify assemblies. #Bioinformatics 🦠⚡
📄 https://doi.org/10.1101/2024.09.24.612722
👤 EVBC: Lars Kaderali
📄 https://doi.org/10.1101/2024.09.24.612722
👤 EVBC: Lars Kaderali
Jaeger: an accurate and fast deep-learning tool to detect bacteriophage sequences
Viruses are integral to every biome on Earth, yet we still need a more comprehensive picture of their identity and global distribution. Global metagenomics sequencing efforts revealed the genomic content of tens of thousands of environmental samples, however identifying the viral sequences in these...
doi.org
September 11, 2025 at 3:17 PM
Jaeger uses #DeepLearning to rapidly detect bacteriophage sequences in #metagenomes with high accuracy and 20× speed gain over existing methods - extracting over five million #phage contigs from MGnify assemblies. #Bioinformatics 🦠⚡
📄 https://doi.org/10.1101/2024.09.24.612722
👤 EVBC: Lars Kaderali
📄 https://doi.org/10.1101/2024.09.24.612722
👤 EVBC: Lars Kaderali
Reposted by Emilio Rios
We are excited to announce the release of MetaGEAR, a platform for exploring microbial gene functions in gastrointestinal diseases. #MetaGEAR integrates #metagenomic data from over 9K human samples, streamlining the identification of microbial genes linked to IDB and CRC: www.mls.ls.tum.de/mdi/tools
April 23, 2025 at 3:23 PM
We are excited to announce the release of MetaGEAR, a platform for exploring microbial gene functions in gastrointestinal diseases. #MetaGEAR integrates #metagenomic data from over 9K human samples, streamlining the identification of microbial genes linked to IDB and CRC: www.mls.ls.tum.de/mdi/tools