qLSLab / GPRulerLinks
GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabolic networks of a given organism based on the corresponding list of genes involved in catalysis of each metabolic reaction, and genes-to-reaction associations.
☆11Updated 2 years ago
Alternatives and similar repositories for GPRuler
Users that are interested in GPRuler are comparing it to the libraries listed below
Sorting:
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Updated last year
- ☆38Updated 2 weeks ago
- SMBGC Annotation using Neural Networks Trained on Interpro Signatures☆27Updated last month
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆17Updated 9 months ago
- Pipeline for major biological analyses.☆35Updated 3 years ago
- PaperBLAST: find papers about a protein or its homologs☆39Updated 3 weeks ago
- Supplementary data for co-occurrence manuscript☆10Updated 5 years ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆37Updated last month
- ☆11Updated 5 years ago
- Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)☆40Updated 5 months ago
- ☆17Updated 3 years ago
- This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…☆20Updated 2 months ago
- A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers☆49Updated 4 months ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆44Updated 2 months ago
- A Python package for discovery, annotation, and analysis of gene clusters in genomics or metagenomics data sets.☆21Updated 3 years ago
- Python bindings for the TaxonKit library☆40Updated 3 weeks ago
- A package to annotate protein sequences☆58Updated 3 months ago
- the toolbox for Microbial and personalized GEM, REactiobiome and community NEtwork modelling☆11Updated last year
- Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.☆18Updated 2 years ago
- Universal and efficient core gene phylogeny with Foldseek and ProstT5☆58Updated 2 weeks ago
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆37Updated 5 months ago
- ☆12Updated 3 years ago
- ☆45Updated last year
- MacSyFinder models allowing for a systematic search of anti-phage systems☆23Updated 4 months ago
- KEGG Module Evaluation Tool☆29Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- Teaching materials for SymbNET course: from MAGs to GEMs☆14Updated last year
- ☆21Updated 4 months ago
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆34Updated 3 months ago
- PHANOTATE: a gene caller for phages.☆76Updated 6 months ago