Alternatives and similar repositories for topiary

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

• psipred / merizo_search
  Fast protein domain structure embedding+search tool
  ☆25Updated 2 weeks ago
• labstructbioinf / pLM-BLAST
  Detection of remote homology by comparison of protein language model representations
  ☆55Updated 9 months ago
• kaistsystemsbiology / DeepProZyme
  DeepECtransformer
  ☆28Updated last year
• jnoms / vpSAT
  Virus Protein Structural Analysis Toolkit
  ☆12Updated last year
• Rostlab / ConSurf
  Evolutionary conservation estimation of residues or nucleotides
  ☆48Updated 3 years ago
• CongLabCode / DPAM
  A domain parser for Alphafold models
  ☆40Updated last year
• BernhoferM / TMbed
  Transmembrane proteins predicted through Language Model embeddings
  ☆39Updated 2 months ago
• maovshao / PLMAlign
  PLMAlign utilizes per-residue embeddings as input to obtain specific alignments and more refined similarity
  ☆20Updated last month
• clairemcwhite / vcmsa
  ☆30Updated last year
• nmatzke / 3diphy
  Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…
  ☆22Updated 5 months ago
• JudeWells / chainsaw
  ☆43Updated last year
• jbloomlab / SARS2-mut-fitness
  Observed substitution counts of SARS-CoV-2 compared to those expected under the mutation rates
  ☆21Updated 11 months ago
• idrblab / AnnoPRO
  Feature map and function annotation of Proteins
  ☆33Updated last year
• davidhoover / DNAWorks
  Automatic oligonucleotide design for PCR-based gene synthesis
  ☆47Updated 6 years ago
• KULL-Centre / _2022_functional-sites-cagiada
  ☆23Updated 2 years ago
• EngqvistLab / Tome
  A machine learning model for the prediction of optimal growth temperature of microorganisms and enzyme catalytic optima
  ☆61Updated 5 years ago
• andyposbe / ColabFold-Pipeline-Toolkit
  The aim of this repository is to provide simple tools to help those working with ColabFold BATCH both for pre and post-processing steps.
  ☆16Updated last year
• TurtleTools / caretta
  A software-suite to perform multiple protein structure alignment and structure feature extraction.
  ☆31Updated 2 years ago
• vttresearch / ActSeek
  Protein discovery tool for mining in the Alphafold database based on the position of few amino acids.
  ☆25Updated 3 months ago
• amaurypm / pseqsid
  Calculates pairwise sequence identity, similarity and normalized similarity score of proteins in a multiple sequence alignment.
  ☆17Updated last year
• DessimozLab / fold_tree
  snakemake pipeline for creating trees from sequence sets
  ☆86Updated 2 weeks ago
• althonos / mini3di
  A NumPy port of the foldseek code for encoding protein structures to 3di.
  ☆72Updated last month
• maovshao / PLMSearch
  PLMSearch enables accurate and fast homologous protein search with only sequences as input
  ☆73Updated last month
• moshi4 / pyMSAviz
  MSA(Multiple Sequence Alignment) visualization python package for sequence analysis
  ☆154Updated 10 months ago
• jafetgado / PyCanal
  Conservation analysis of homologous proteins with Python
  ☆12Updated 4 years ago
• Merck / bgc-pipeline
  ☆11Updated 10 months ago
• microsoft / protnote
  ProtNote is a multimodal deep learning model that leverages free-form text to enable both supervised and zero-shot protein function predi…
  ☆55Updated 5 months ago
• tsenoner / protspace
  ProtSpace is program that helps in visualizing and investigating our protein embedding space.
  ☆33Updated last week
• infernet-h2020 / DCAlign
  ☆11Updated last year
• psipred / s4pred
  A tool for accurate prediction of a protein's secondary structure from only it's amino acid sequence
  ☆60Updated 6 months ago