Alternatives and similar repositories for pyfamsa:

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

• steineggerlab / unicore
  Universal and efficient core gene phylogeny with Foldseek and ProstT5
  ☆55Updated 3 weeks ago
• soedinglab / spacedust
  Discovery of conserved gene clusters in multiple genomes
  ☆79Updated last month
• althonos / pytrimal
  Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
  ☆24Updated 2 months ago
• moshi4 / phyTreeViz
  Simple phylogenetic tree visualization python package for phylogenetic analysis
  ☆48Updated 7 months ago
• Gaius-Augustus / learnMSA
  Learning and Aligning Large Protein Families with support of protein language models.
  ☆23Updated this week
• althonos / pymuscle5
  Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
  ☆21Updated 11 months ago
• allie-walker / Natural-product-function
  scripts for predicting natural product activity from biosynthetic gene cluster sequences
  ☆23Updated last week
• BolognaBiocomp / deepsig
  DeepSig - Predictor of signal peptides in proteins based on deep learning
  ☆26Updated 2 years ago
• Arcadia-Science / 2023-nr-clustering
  Clustering the NCBI nr database with mmseq2 (90% length, 90% identity). Inspired by the NCBI's experimental ClusteredNR database.
  ☆23Updated last year
• nebiolabs / domainator
  A flexible and modular software suite for domain-based gene neighborhood and protein search, extraction, and clustering.
  ☆20Updated last month
• Protein-Sequence-Annotation / PSALM
  Protein Sequence Annotation with Language Models
  ☆20Updated 6 months ago
• Finn-Lab / SanntiS
  SMBGC Annotation using Neural Networks Trained on Interpro Signatures
  ☆27Updated 3 weeks ago
• rcedgar / reseek
  Protein structure alignment and search algorithm
  ☆59Updated last month
• cultivarium / GenomeSPOT
  Predict oxygen, temperature, salinity, and pH preferences of bacteria and archaea from a genome
  ☆48Updated last month
• iquasere / UPIMAPI
  UniProt Id Mapping through API
  ☆31Updated 7 months ago
• nmatzke / 3diphy
  Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…
  ☆20Updated 10 months ago
• NBChub / bgcflow
  Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
  ☆40Updated 4 months ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆47Updated last week
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆55Updated 4 years ago
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆38Updated 3 weeks ago
• fhlab / UMIC-seq
  Nanopore UMI-linked consensus sequencing
  ☆15Updated 4 years ago
• RyanCook94 / inphared
  Providing up-to-date phage genome databases, metrics and useful input files for a number of bioinformatic pipelines.
  ☆67Updated 2 weeks ago
• barricklab / ostir
  Software for predicting translation initiation rates in bacteria
  ☆22Updated 5 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.
  ☆35Updated 8 months ago
• harmslab / topiary
  Python framework for doing ancestral sequence reconstruction
  ☆38Updated 9 months ago
• Merck / bgc-pipeline
  ☆11Updated 4 months ago
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆34Updated 3 years ago
• althonos / pyrodigal-gv
  A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
  ☆17Updated 8 months ago
• tlawrence3 / amPEPpy
  ☆24Updated last year
• mdmparis / antidefensefinder_2024
  ☆7Updated 7 months ago