Ryan Teo @teojcryan
Computational Biology PhD Student at the University of Birmingham
X
X
Bluesky
Bluesky
LinkedIn
LinkedIn
IGGSy / MICROSOC 2024
[1] Embracing Metagenomic Complexity with a Genome-Free Approach
[1] Embracing Metagenomic Complexity with a Genome-Free Approach
A central paradigm in microbiome data analysis, which we term the genome-centric paradigm, is that a linear (nonbranching) DNA sequence is the ideal representation of a microbial genome. This representation is natural, as microbes indeed have ...
[2] How to apply de Bruijn graphs to genome assembly
[2] How to apply de Bruijn graphs to genome assembly
A mathematical concept known as a de Bruijn graph turns the formidable challenge of assembling a contiguous genome from billions of short sequencing reads into a tractable computational problem.
[3] Successional dynamics and alternative stable states in a saline activated sludge microbial community over 9 years
[3] Successional dynamics and alternative stable states in a saline activated sludge microbial community over 9 years
[4] fastp: An ultra-fast all-in-one FASTQ preprocessor
[4] fastp: An ultra-fast all-in-one FASTQ preprocessor
[5] seqkit: A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
[5] seqkit: A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
[6] KMC: Fast and frugal disk based k-mer counter
[6] KMC: Fast and frugal disk based k-mer counter
[7] Exploring Network Structure, Dynamics, and Function using NetworkX
[7] Exploring Network Structure, Dynamics, and Function using NetworkX
[8] Gephi: An Open Source Software for Exploring and Manipulating Networks
[8] Gephi: An Open Source Software for Exploring and Manipulating Networks
[9] visNetwork: R package, using vis.js library for network visualization
[9] visNetwork: R package, using vis.js library for network visualization
[10] BLAST+: architecture and applications
[10] BLAST+: architecture and applications
GLOBAL HEALTH SECURITY CONF. 2024
[1]: A Global Nucleic Acid Observatory for Biodefense and Planetary Health
[1]: A Global Nucleic Acid Observatory for Biodefense and Planetary Health
Abstract page for arXiv paper 2108.02678: A Global Nucleic Acid Observatory for Biodefense and Planetary Health
[2]: Managing the Transition to Widespread Metagenomic Monitoring: Policy Considerations for Future Biosurveillance
[2]: Managing the Transition to Widespread Metagenomic Monitoring: Policy Considerations for Future Biosurveillance
[3]: Improved metagenomic analysis with Kraken 2
[3]: Improved metagenomic analysis with Kraken 2
[4]: Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity
[4]: Nonpareil 3: Fast Estimation of Metagenomic Coverage and Sequence Diversity
[5]: Successional dynamics and alternative stable states in a saline activated sludge microbial community over 9 years
[5]: Successional dynamics and alternative stable states in a saline activated sludge microbial community over 9 years
View on mobile