metacyc

Here are 8 public repositories matching this topic...

hallamlab / pathway2vec

Leveraging Heterogeneous Network Embedding for Metabolic Pathway Prediction

bioinformatics deep-learning metapath embedding pathway-prediction metacyc heterogeneous-information-networks biocyc pathway-tools

Updated Jul 8, 2021
Python

hallamlab / mlLGPR

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Metabolic pathway inference using multi-label classification with rich pathway features

bioinformatics metagenomics logistic-regression multi-label-learning pathway-prediction metacyc biocyc pathway-tools

Updated Jul 6, 2023
Python

hallamlab / reMap

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reMap: relabeling metabolic pathway data with groups to improve prediction outcomes

groups bioinformatics embeddings topic-modeling multi-label-classification bags centroid multi-label-learning metacyc metabolic-pathways relabel biocyc bags-of-pathways pathway2vec groups-of-pathways

Updated Nov 8, 2021
Python

arbasher / prepBioCyc

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prepBioCyc: Preprocess BioCyc files

bioinformatics graph metagenomics bioinformatics-pipeline heterogeneous-network data-wrangling bioinformatics-analysis metabolic-network metacyc metabolic-pathways bioinformatics-tool biocyc

Updated Apr 27, 2022
Python

hallamlab / triUMPF

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Metabolic pathway inference using non-negative matrix factorization with community detection

bioinformatics community-detection metagenomics multi-label-classification metabolic-reconstruction non-negative-matrix-factorization multi-label-learning pathway-prediction metacyc metabolic-pathways subnetwork biocyc pathway2ec-association-matrix

Updated Sep 19, 2021
Python

Qasim-Hussain-Code / metaphlan4_humann3_microbiome_pipeline

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Metagenomic functional profiling pipeline for reconstructing metabolic pathway abundances and gene families from shotgun sequencing reads. Automates marker-based taxonomic profiling and translated search to quantify community-wide metabolic potential and taxonomically attribute metabolic functions.