Alternatives and similar repositories for pgp_reconstruction

Users that are interested in pgp_reconstruction are comparing it to the libraries listed below

• qLSLab / GPRuler
  GPRuler, an open-source computational framework to automate the reconstruction process of Gene-Protein-Reaction (GPR) rules within metabo…
  ☆11Updated 2 years ago
• kelwyres / Bactabolize
  ☆41Updated 3 months ago
• AlmaasLab / BiGMeC
  BiGMeC - Biosynthetic Gene cluster Metabolic pathway Constructor
  ☆15Updated 2 years ago
• cultivarium / GenomeSPOT
  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome
  ☆56Updated 6 months ago
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆18Updated 2 years ago
• AuReMe / metage2metabo
  From annotated genomes to metabolic screening in large scale microbiotas
  ☆64Updated 4 months ago
• YoukaiFromAccounting / skandiver
  skandiver is a program for identifying mobile genetic elements (prophages, plasmids, transposases, etc.) from assembled whole genome sequ…
  ☆13Updated 2 months ago
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆86Updated last month
• nselem / corason
  Bioinformatic Tools for study Evolution of metabolic diversity
  ☆34Updated last year
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆35Updated 3 years ago
• RogerLab / Eukfinder
  Eukfinder: A pipeline to retrieve microbial eukaryote genomes from metagenomic sequencing data
  ☆27Updated 5 months ago
• morgannprice / PaperBLAST
  PaperBLAST: find papers about a protein or its homologs
  ☆46Updated 2 weeks ago
• NBChub / bgcflow
  Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
  ☆48Updated 9 months ago
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆59Updated 2 months ago
• jensenlab / BacterAI
  ☆26Updated last year
• vinisalazar / metaphor
  Metaphor: a general-purpose workflow for assembly and binning of metagenomes
  ☆40Updated 10 months ago
• Kalan-Lab / lsaBGC
  lsaBGC - Lineage Specific Analysis of Biosynthetic Gene Clusters
  ☆37Updated last week
• RyanCook94 / inphared
  Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.
  ☆72Updated 5 months ago
• steineggerlab / unicore
  Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5
  ☆75Updated 3 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆86Updated 2 years ago
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆58Updated 4 years ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆64Updated last week
• Carrion-lab / bacLIFE
  ☆49Updated 2 weeks ago
• vinuesa / TIB-filoinfo
  Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México
  ☆26Updated last month
• emmamglass / reconstructor
  This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…
  ☆23Updated 3 months ago
• medema-group / BiG-MAP
  ☆30Updated last month
• functional-dark-side / agnostos-wf
  ☆45Updated 2 years ago
• gem-pasteur / macsyfinder
  MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
  ☆64Updated this week
• mdmparis / defense-finder-models
  MacSyFinder models allowing for a systematic search of anti-phage systems
  ☆22Updated 8 months ago
• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆111Updated this week