Bioinformatics Lab, De La Salle University, Manila

All

14 repositories

rice-pilaf
Public
Published in GigaScience. Web app for post-GWAS/QTL analysis that performs a slew of novel bioinformatics analyses to cross-reference GWAS/QTL mapping results with a host of publicly available rice databases
docker nginx flask bioinformatics transcription-factors genomics rice agriculture community-detection uwsgi
Python
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MIT License
•1•1•0•0•Updated Dec 26, 2024Dec 26, 2024
bioinfodlsu.github.io
Public
Website of the Bioinformatics Lab at DLSU Manila
SCSS
•1•1•0•0•Updated Dec 23, 2024Dec 23, 2024
PHIStruct
Public
Phage-host interaction prediction tool that incorporates protein structure information in representing receptor-binding proteins (RBPs). It improves performance especially for phages with RBPs that have low sequence similarity to those of known phages
machine-learning bioinformatics deep-learning genomics protein-structure transformer protein proteomics transfer-learning representation-learning
Jupyter Notebook
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MIT License
•0•3•0•0•Updated Dec 3, 2024Dec 3, 2024
phage-host-prediction
Public
Published in PLOS ONE. Phage-host interaction prediction tool that uses protein language models to represent the receptor-binding proteins of phages. It presents improvements over using handcrafted sequence properties and eliminates the need to manually extract and select features from phage sequences
machine-learning bioinformatics genomics transformer protein proteomics transfer-learning representation-learning protein-embedding phage-host-prediction
Jupyter Notebook
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MIT License
•2•13•0•0•Updated Nov 28, 2024Nov 28, 2024
regulated-cell-death-playground
Public
Collection of analysis scripts and notebooks related to regulated cell death
HTML
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MIT License
•0•0•0•0•Updated Nov 10, 2024Nov 10, 2024
samar
Public
Samar is a pipeline for speedy, assembly-free differential gene expression analysis in non-model organisms.
Python
•1•1•0•0•Updated Oct 25, 2024Oct 25, 2024
samar_lite
Public
Quick-and-dirty differential gene expression analysis pipeline that avoids computationally demanding de-novo transcriptome assembly
Rust
•0•0•0•0•Updated Oct 25, 2024Oct 25, 2024
hiv_hts_pipeline
Public
A Snakemake pipeline for drug-resistance profiling using HIV whole-genome NGS data
Python
•0•0•0•0•Updated Oct 19, 2024Oct 19, 2024
basic-r-tutorial
Public
Basics of R programming
r tutorial-code basic-r-coding r-tutorial
MIT License
•0•0•0•0•Updated Oct 18, 2024Oct 18, 2024
bioinfodlsu-survival-guide
Public
Collection of reference material for FAQ from members/applicants of Bioinformatics Lab, DLSU Manila
0•0•0•0•Updated Aug 27, 2024Aug 27, 2024
attack_amr_pipeline
Public
Bioinformatics pipeline for profiling anti-microbial resistance genes from hospital wastewater
Python
•0•0•0•0•Updated Apr 17, 2024Apr 17, 2024
.github
Public
0•0•0•0•Updated Mar 19, 2024Mar 19, 2024
attack_amr
Public
Source code for analysis of hospital wastewater metagenomic data
HTML
•3•1•0•0•Updated Apr 11, 2023Apr 11, 2023
regulated_cell_death
Public
Jupyter Notebook
•0•0•0•0•Updated Aug 3, 2022Aug 3, 2022