Pinned Repositories
ccs-prediction
Evaluating the generalizability of graph neural networks for predicting collision cross section
ethnobotany
Source code and data for "Modern drug discovery using ethnobotany: A large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses"
kgem-ensembles-in-drug-discovery
Source code and data repository for "Ensembles of knowledge graph embedding models improve predictions for drug discovery"
misosoup-preview
Farm-to-Table Mass-Spec Data Processing
mspaint
multi-engine painting of mass spec data
np-clinical-trials
Source code and data for "Natural products have increased rates of clinical trial success throughout the drug development process"
plant-chemical-space
Source code and data for "Exploring the known chemical space of the plant kingdom: Insights into taxonomic patterns, knowledge gaps, and bioactive regions"
RPath
Source code and data for "Causal reasoning over knowledge graphs leveraging drug-perturbed and disease-specific transcriptomic signatures for drug discovery"
sinusoidal-embedding
code to generate sinusoidal embeddings
weighting-spectral-similarity
Scripts and notebooks from Weighting low-intensity MS/MS ions and m/z frequency for spectral library annotation
Enveda Biosciences's Repositories
enveda/kgem-ensembles-in-drug-discovery
Source code and data repository for "Ensembles of knowledge graph embedding models improve predictions for drug discovery"
enveda/RPath
Source code and data for "Causal reasoning over knowledge graphs leveraging drug-perturbed and disease-specific transcriptomic signatures for drug discovery"
enveda/ccs-prediction
Evaluating the generalizability of graph neural networks for predicting collision cross section
enveda/np-clinical-trials
Source code and data for "Natural products have increased rates of clinical trial success throughout the drug development process"
enveda/sinusoidal-embedding
code to generate sinusoidal embeddings
enveda/weighting-spectral-similarity
Scripts and notebooks from Weighting low-intensity MS/MS ions and m/z frequency for spectral library annotation
enveda/ethnobotany
Source code and data for "Modern drug discovery using ethnobotany: A large-scale cross-cultural analysis of traditional medicine reveals common therapeutic uses"
enveda/misosoup-preview
Farm-to-Table Mass-Spec Data Processing
enveda/plant-chemical-space
Source code and data for "Exploring the known chemical space of the plant kingdom: Insights into taxonomic patterns, knowledge gaps, and bioactive regions"
enveda/spec2tax
repo to support the spec2tax poster at ASMS 2022
enveda/transcriptomic-target-correlation
On the correspondence between the transcriptomic response of a compound and its targets
enveda/biomedical-nlp-datasets
Tools for curating biomedical training data for large-scale language modeling
enveda/biosaur_adapter
enveda/commonMZ
A collection of common mz values found in mass spectrometry.
enveda/GenBioEL
Generative Biomedical Entity Linking via Knowledge Base-Guided Pre-training and Synonyms-Aware Fine-tuning[NAACL 2022]
enveda/libPeak
Methods of peak detection for analytical instruments
enveda/mspaint
multi-engine painting of mass spec data
enveda/nbdev-demo
Demonstration of nbdev-based development
enveda/deconv_benchmark
enveda/hgraph2graph
Hierarchical Generation of Molecular Graphs using Structural Motifs
enveda/sapbert
[NAACL & ACL 2021] SapBERT: Self-alignment pretraining for BERT & XL-BEL: Cross-Lingual Biomedical Entity Linking.
enveda/sparc-multiomics
SPARC CCF Multi-omics analysis
enveda/timsconvert