Alternatives and similar repositories for ViBE

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

• IKIM-Essen / RiboSnake
  16S pipeline using qiime2 created with snakemake
  ☆12Updated last week
• JJAlmagro / TargetP-2.0
  Detecting Sequence Signals in Targeting Peptides Using Deep Learning
  ☆13Updated 6 years ago
• GCA-VH-lab / uorf4u
  uorf4u is a bioinformatics tool for conserved upstream ORF annotation.
  ☆13Updated 3 months ago
• hmdlab / ARG-BERT
  ☆10Updated 9 months ago
• HUST-NingKang-Lab / MGM
  MGM (Microbial General Model) as a large-scaled pretrained language model for interpretable microbiome data analysis.
  ☆40Updated 8 months ago
• mol-evol / panGPT
  A Generative Pre-Trained Transformer Package for Pangenomes
  ☆53Updated 7 months ago
• rcedgar / palm_annot
  Scripts, HMMs and search databases for identifying and classifying viral RdRp sequences
  ☆11Updated 6 months ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆23Updated 2 months ago
• CAMI-challenge / second_challenge_evaluation
  Repository for codes, analyses and visualizations for the CAMI II challenges
  ☆14Updated 2 years ago
• althonos / pytrimal
  Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
  ☆27Updated last month
• Finn-Lab / SanntiS
  SMBGC Annotation using Neural Networks Trained on Interpro Signatures
  ☆29Updated 9 months ago
• batmen-lab / SGPvalue
  ☆13Updated last year
• mmcco / RepeatScout
  The RepeatScout 1.0.5, written by Pevzner et al., source code for browsing. The official release and more information are available at h…
  ☆16Updated 2 years ago
• PNNL-CompBio / Snekmer
  Pipeline to apply encoded Kmer analysis to protein sequences
  ☆16Updated 3 weeks ago
• PombertLab / 3DFI
  The 3DFI pipeline predicts the 3D structure of proteins and searches for structural homology in the 3D space.
  ☆20Updated last year
• steineggerlab / unicore
  Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5
  ☆82Updated last month
• TORCH-Consortium / MAGMA
  A pipeline for comprehensive genomic analyses of Mycobacterium tuberculosis with a focus on clinical decision making as well as research
  ☆19Updated last month
• BioinformaticsToolsmith / MeShClust2
  MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences
  ☆15Updated 3 years ago
• martin-steinegger / kraken-protocol
  Metagenome analysis using the Kraken software suite
  ☆35Updated 3 years ago
• mourisl / MSAplot
  Plot multiple sequence alignment (MSA)
  ☆16Updated last year
• GCA-VH-lab / FlaGs
  ☆19Updated 3 years ago
• nf-core / proteinfamilies
  Generation and updating of protein families
  ☆21Updated 3 weeks ago
• steineggerlab / Metabuli-App
  ☆36Updated 2 weeks ago
• wclose / viralMetagenomicsPipeline
  Pipeline for metagenomic community analysis using DNA isolated from virus-like particles
  ☆13Updated 5 years ago
• ZiyueYang01 / VirID
  VirID: An integrated platform for the discovery and characterization of RNA Viruses
  ☆22Updated 10 months ago
• refresh-bio / clusty
  ☆14Updated 7 months ago
• KoslickiLab / MetagenomicKG
  ☆17Updated 2 months ago
• timghaly / EcoFoldDB
  Database and pipeline for protein structure-guided annotations of ecologically relevant functions at the metagenome scale.
  ☆24Updated 2 months ago
• pantherdb / TreeGrafter
  TreeGrafter is a new software tool for annotating uncharacterized protein sequences, using annotated phylogenetic trees.
  ☆13Updated 5 months ago
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated 3 months ago