Alternatives and similar repositories for embl_gems

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

• micom-dev / micom
  Python package to study microbial communities using metabolic modeling.
  ☆115Updated 2 weeks ago
• ModelSEED / ModelSEEDDatabase
  This repository contains the definitive copy of the biochemistry and metadata used to construct models using the ModelSEED/ProbAnno appro…
  ☆65Updated last month
• cdanielmachado / smetana
  SMETANA: a tool to analyse interactions in microbial communities
  ☆66Updated 9 months ago
• emmamglass / reconstructor
  This repository contains all source code in the reconstructor python package, installation instructions, important file dependencies, and…
  ☆24Updated this week
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆95Updated 6 months ago
• cdanielmachado / carveme
  CarveMe: genome-scale metabolic model reconstruction
  ☆194Updated 5 months ago
• AuReMe / metage2metabo
  From annotated genomes to metabolic screening in large scale microbiotas
  ☆68Updated 3 weeks ago
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆63Updated 4 months ago
• ModelSEED / ModelSEEDpy
  Python package for building and analyzing models using ModelSEED
  ☆25Updated 9 months ago
• gem-pasteur / macsyfinder
  MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
  ☆72Updated last month
• morgannprice / PaperBLAST
  PaperBLAST: find papers about a protein or its homologs
  ☆51Updated 3 weeks ago
• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆150Updated 10 months ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆81Updated 2 years ago
• iquasere / KEGGCharter
  A tool for representing genomic potential and transcriptomic expression into KEGG pathways
  ☆61Updated last year
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆152Updated last week
• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆78Updated 2 years ago
• tamascogustavo / chimera
  Chimera: An easy to use pipeline for Genome based Metabolic Network reconstruction, evaluation and visualization.
  ☆18Updated 3 years ago
• nselem / corason
  Bioinformatic Tools for study Evolution of metabolic diversity
  ☆39Updated last year
• soedinglab / plass
  sensitive and precise assembly of short sequencing reads
  ☆162Updated last year
• JustineCharon / RdRp-scan
  Exploring the "dusk matter" of the RNA virosphere
  ☆37Updated 3 years ago
• EBI-Metagenomics / genomes-catalogue-pipeline
  MGnify genome analysis pipeline
  ☆108Updated last month
• Gibbons-Lab / isb_course_2023
  Materials and presentation for the 2023 ISB Microbiome course.
  ☆24Updated last year
• cultivarium / GenomeSPOT
  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome
  ☆67Updated 10 months ago
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆88Updated 2 years ago
• gamcil / cblaster
  Find clustered hits from a BLAST search
  ☆132Updated 3 weeks ago
• biobakery / graphlan
  High-quality circular representations of taxonomic and phylogenetic trees
  ☆106Updated last year
• glarue / jgi-query
  A simple command-line tool to download data from Joint Genome Institute databases
  ☆51Updated 3 years ago
• kblin / ncbi-acc-download
  Download files from NCBI Entrez by accession
  ☆134Updated last year
• sbslee / dokdo
  A Python package for microbiome sequencing analysis with QIIME 2
  ☆47Updated 2 years ago
• linnabrown / run_dbcan
  Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…
  ☆158Updated 9 months ago