Jaebeom Kim
@jbeom.bsky.social
Developing bioinformatics software in Steinegger lab. at Seoul National Univ.
Huge congratulations and thanks to
@sunjaelee.bsky.social, @milot.bsky.social,
@cameron.gilchrist, and @martinsteinegger.bsky.social 👍
@sunjaelee.bsky.social, @milot.bsky.social,
@cameron.gilchrist, and @martinsteinegger.bsky.social 👍
October 16, 2025 at 7:29 AM
Huge congratulations and thanks to
@sunjaelee.bsky.social, @milot.bsky.social,
@cameron.gilchrist, and @martinsteinegger.bsky.social 👍
@sunjaelee.bsky.social, @milot.bsky.social,
@cameron.gilchrist, and @martinsteinegger.bsky.social 👍
Curate your database. 🧵4/5
- GTDB, NCBI, ICTV, or custom taxonomy supported.
- Add genomes to a pre-built DB to save time (benchmark in figure)
- Expand taxonomy. e.g., integrate ICTV viruses into a GTDB prokaryote DB.
⏱️Building a DB of 8,520 GTDB species took 106 min on a MacBook M2 Pro (32G)
- GTDB, NCBI, ICTV, or custom taxonomy supported.
- Add genomes to a pre-built DB to save time (benchmark in figure)
- Expand taxonomy. e.g., integrate ICTV viruses into a GTDB prokaryote DB.
⏱️Building a DB of 8,520 GTDB species took 106 min on a MacBook M2 Pro (32G)
October 16, 2025 at 7:29 AM
Curate your database. 🧵4/5
- GTDB, NCBI, ICTV, or custom taxonomy supported.
- Add genomes to a pre-built DB to save time (benchmark in figure)
- Expand taxonomy. e.g., integrate ICTV viruses into a GTDB prokaryote DB.
⏱️Building a DB of 8,520 GTDB species took 106 min on a MacBook M2 Pro (32G)
- GTDB, NCBI, ICTV, or custom taxonomy supported.
- Add genomes to a pre-built DB to save time (benchmark in figure)
- Expand taxonomy. e.g., integrate ICTV viruses into a GTDB prokaryote DB.
⏱️Building a DB of 8,520 GTDB species took 106 min on a MacBook M2 Pro (32G)
Explore results with interactive visualization. 🧵3/5
- Generate customized Sankey plots.
- Search for taxa of interest.
- Filter by classified reads or proportion.
- Click taxon nodes for subtree views.
- Extract reads classified to a taxon.
- Access NCBI Taxonomy and genome browser.
- Generate customized Sankey plots.
- Search for taxa of interest.
- Filter by classified reads or proportion.
- Click taxon nodes for subtree views.
- Extract reads classified to a taxon.
- Access NCBI Taxonomy and genome browser.
October 16, 2025 at 7:29 AM
Explore results with interactive visualization. 🧵3/5
- Generate customized Sankey plots.
- Search for taxa of interest.
- Filter by classified reads or proportion.
- Click taxon nodes for subtree views.
- Extract reads classified to a taxon.
- Access NCBI Taxonomy and genome browser.
- Generate customized Sankey plots.
- Search for taxa of interest.
- Filter by classified reads or proportion.
- Click taxon nodes for subtree views.
- Extract reads classified to a taxon.
- Access NCBI Taxonomy and genome browser.
The app runs desktop-optimized Metabuli. 🧵2/5
Classifying 2X22M human gut reads vs. 36K genomes over 8,465 species took:
🖥️46 min on a Windows desktop (i9-9900, 32GB RAM)
💻39 min on a MacBook M2 Pro (32GB RAM)
Classifying 2X22M human gut reads vs. 36K genomes over 8,465 species took:
🖥️46 min on a Windows desktop (i9-9900, 32GB RAM)
💻39 min on a MacBook M2 Pro (32GB RAM)
October 16, 2025 at 7:29 AM
The app runs desktop-optimized Metabuli. 🧵2/5
Classifying 2X22M human gut reads vs. 36K genomes over 8,465 species took:
🖥️46 min on a Windows desktop (i9-9900, 32GB RAM)
💻39 min on a MacBook M2 Pro (32GB RAM)
Classifying 2X22M human gut reads vs. 36K genomes over 8,465 species took:
🖥️46 min on a Windows desktop (i9-9900, 32GB RAM)
💻39 min on a MacBook M2 Pro (32GB RAM)
Reposted by Jaebeom Kim
I also updated the main #RECOMB2025 things-to-do map to include more tourist attractions and some of the standout vegan places I have visited myself (except the two places next to Yonsei, which I didn't have a chance to visit yet):
www.google.com/maps/d/edit?...
www.google.com/maps/d/edit?...
RECOMB2025 Things to do - Google My Maps
RECOMB2025 Things to do
www.google.com
April 21, 2025 at 1:48 PM
I also updated the main #RECOMB2025 things-to-do map to include more tourist attractions and some of the standout vegan places I have visited myself (except the two places next to Yonsei, which I didn't have a chance to visit yet):
www.google.com/maps/d/edit?...
www.google.com/maps/d/edit?...