Alternatives and similar repositories for pytrimal

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

• althonos / pymuscle5
  Cython bindings and Python interface to MUSCLE v5, a highly efficient and accurate multiple sequence alignment software.
  ☆21Updated last year
• althonos / pyfamsa
  Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
  ☆31Updated 3 months ago
• steineggerlab / unicore
  Universal and efficient core gene phylogeny with Foldseek and ProstT5
  ☆58Updated 2 weeks ago
• Protein-Sequence-Annotation / PSALM
  Protein Sequence Annotation with Language Models
  ☆20Updated this week
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆40Updated 3 weeks ago
• BolognaBiocomp / deepsig
  DeepSig - Predictor of signal peptides in proteins based on deep learning
  ☆26Updated 2 years ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆48Updated last week
• mourisl / MSAplot
  Plot multiple sequence alignment (MSA)
  ☆14Updated 8 months ago
• Gaius-Augustus / learnMSA
  Learning and Aligning Large Protein Families with support of protein language models.
  ☆25Updated 3 weeks ago
• althonos / gb-io.py
  A Python interface to gb-io, a fast GenBank parser written in Rust.
  ☆17Updated last month
• Finn-Lab / SanntiS
  SMBGC Annotation using Neural Networks Trained on Interpro Signatures
  ☆27Updated last month
• althonos / pyrodigal-gv
  A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
  ☆17Updated 9 months ago
• PNNL-CompBio / Snekmer
  Pipeline to apply encoded Kmer analysis to protein sequences
  ☆16Updated this week
• 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 2 years ago
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆55Updated 4 years ago
• mol-evol / panGPT
  A Generative Pre-Trained Transformer Package for Pangenomes
  ☆51Updated 2 weeks ago
• thekaplanlab / msabrowser
  🧬 MSABrowser: dynamic and fast visualization of sequence alignments, variations, and annotations
  ☆32Updated last year
• nmatzke / 3diphy
  Maximum likelihood structural phylogenetics by including Foldseek 3Di characters. Supporting Information for Puente-Lelievre et al. 2023n…
  ☆21Updated 3 weeks ago
• fhlab / UMIC-seq
  Nanopore UMI-linked consensus sequencing
  ☆16Updated 4 years ago
• gamcil / clustermap.js
  ☆31Updated 3 years ago
• Kalan-Lab / codoff
  codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the fu…
  ☆11Updated 2 months ago
• aaronmussig / PhyloDM
  Efficient calculation of phylogenetic distance matrices.
  ☆47Updated 7 months ago
• GCA-VH-lab / uorf4u
  uorf4u is a bioinformatics tool for conserved upstream ORF annotation.
  ☆13Updated this week
• nanoporetech / DTR-phage-pipeline
  ☆16Updated last year
• dbikard / genomenotebook
  A genome browser in your Jupyter notebook
  ☆31Updated 3 weeks ago
• Edinburgh-Genome-Foundry / Geneblocks
  Find common blocks and differences between DNA sequences
  ☆42Updated last month
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆86Updated 2 years ago
• BioinformaticsToolsmith / MeShClust2
  MeShClust2: Application of alignment-free identity scores in clustering long DNA sequences
  ☆14Updated 3 years ago
• moshi4 / pybarrnap
  Python implementation of barrnap (Bacterial ribosomal RNA predictor)
  ☆20Updated 4 months ago
• NBChub / bgcflow
  Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
  ☆40Updated 5 months ago