Alternatives and similar repositories for UPIMAPI

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

• Merck / deepbgc
  BGC Detection and Classification Using Deep Learning
  ☆146Updated last year
• moshi4 / pyMSAviz
  MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
  ☆135Updated 7 months ago
• fteufel / signalp-6.0
  Multi-class signal peptide prediction and structure decoding model.
  ☆88Updated 5 months ago
• barricklab / ostir
  Software for predicting translation initiation rates in bacteria
  ☆27Updated 7 months ago
• allie-walker / Natural-product-function
  scripts for predicting natural product activity from biosynthetic gene cluster sequences
  ☆23Updated last month
• Merck / bgc-pipeline
  ☆11Updated 7 months ago
• rcedgar / reseek
  Protein structure alignment and search algorithm
  ☆63Updated last week
• DessimozLab / fold_tree
  snakemake pipeline for creating trees from sequence sets
  ☆82Updated last month
• soedinglab / spacedust
  Discovery of conserved gene clusters in multiple genomes
  ☆82Updated 2 months ago
• guyleonard / get_jgi_genomes
  A quick and easy way to download the genomes/predicted proteins of taxa available in JGI's Genome Portal.
  ☆37Updated last month
• cultivarium / GenomeSPOT
  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome
  ☆55Updated 3 months ago
• bcgsc / AMPlify
  Attentive deep learning model for antimicrobial peptide prediction
  ☆49Updated 3 months ago
• Russel88 / CRISPRCasTyper
  CCTyper: Automatic detection and subtyping of CRISPR-Cas operons
  ☆102Updated last year
• soedinglab / plass
  sensitive and precise assembly of short sequencing reads
  ☆156Updated 9 months ago
• althonos / pyfamsa
  Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
  ☆32Updated last month
• LucaOne / LucaPCycle
  We developed a dual-channel model named LucaPCycle, based on the raw sequence and protein language large models, to predict whether a pro…
  ☆23Updated 3 weeks ago
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆82Updated 7 months ago
• althonos / pyhmmer
  Cython bindings and Python interface to HMMER3.
  ☆140Updated 3 weeks ago
• EddyRivasLab / infernal
  RNA secondary structure/sequence profiles for homology search and alignment
  ☆112Updated 8 months ago
• althonos / pymemesuite
  Cython bindings and Python interface to the MEME suite, a collection of tools for the analysis of sequence motifs.
  ☆14Updated 2 months ago
• IndexThePlanet / Logan
  Logan Unitigs and Contigs
  ☆137Updated this week
• HobnobMancer / cazy_webscraper
  Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
  ☆14Updated 6 months ago
• EnzoAndree / HmmPy
  A Pure-Python parser of HMMER3 output
  ☆17Updated 9 months ago
• gbouras13 / phold
  Phage Annotation using Protein Structures
  ☆109Updated 2 weeks ago
• steineggerlab / Metabuli
  Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.
  ☆141Updated last week
• BioinformaticsLabAtMUN / Promotech
  Machine-learning-based general bacterial promoter prediction tool.
  ☆48Updated 2 years ago
• SysBioChalmers / GECKO
  Toolbox for including enzyme constraints on a genome-scale model.
  ☆76Updated 2 months ago
• MiguelMSandin / SSNetworks
  A brief, quick and dirty introduction to Sequence Similarity Networks
  ☆21Updated 2 years ago
• gem-pasteur / macsyfinder
  MacSyFinder - Detection of macromolecular systems in protein datasets using systems modelling and similarity search.
  ☆62Updated 7 months ago
• nebiolabs / domainator
  A flexible and modular software suite for domain-based gene neighborhood and protein search, extraction, and clustering.
  ☆21Updated 4 months ago