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 3 years ago
Alternatives and similar repositories for GPRuler
Users that are interested in GPRuler are comparing it to the libraries listed below
Sorting:
- ☆41Updated 6 months ago
- Python bindings for the TaxonKit library☆41Updated last week
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆20Updated 2 weeks ago
- 🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs☆67Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆22Updated last year
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Updated 3 weeks ago
- ☆14Updated 4 years ago
- A Python package for obtaining complete lineages and the lowest common ancestor (LCA) from a set of taxonomic identifiers☆52Updated 3 weeks ago
- A package to annotate protein sequences☆60Updated 9 months ago
- PHANOTATE: a gene caller for phages.☆79Updated last year
- Simple phylogenetic tree visualization python package for phylogenetic analysis☆63Updated last year
- Bacterial Annotation by Learned Representation of Genes☆58Updated 4 years ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆67Updated last week
- More scalable dereplication for metagenome assembled genomes☆74Updated last month
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆36Updated 11 months ago
- Pipeline for major biological analyses.☆35Updated 3 years ago
- AMBER: Assessment of Metagenome BinnERs☆31Updated 10 months ago
- lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters☆39Updated 2 months ago
- ☆45Updated 2 years ago
- PaperBLAST: find papers about a protein or its homologs☆48Updated last week
- Supplementary data for co-occurrence manuscript☆10Updated 5 years ago
- ☆32Updated 2 months ago
- Machine learning for accurate identification and classification of CRISPR-Cas systems☆23Updated 11 months ago
- Scalable creating/updating of metagenome profiling databases☆62Updated 5 months ago
- Pathway-Guided Pruning Reconstruction of Genome-Scale Metabolic Models☆12Updated 2 years ago
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆94Updated 6 months ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆48Updated 8 months ago
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Updated last month
- Unified Human Gut Virome Catalog☆38Updated last month
- Strain Resolution ON Graphs☆49Updated 2 years ago