Alternatives and similar repositories for pathogenie

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

• Edinburgh-Genome-Foundry / Geneblocks
  Find common blocks and differences between DNA sequences
  ☆42Updated last month
• salzberg-lab / Balrog
  Bacterial Annotation by Learned Representation of Genes
  ☆58Updated 4 years ago
• BolognaBiocomp / deepsig
  DeepSig - Predictor of signal peptides in proteins based on deep learning
  ☆27Updated 2 years ago
• mckennalab / Circuitseq
  Nanopore Plasmid Sequencing
  ☆34Updated 2 years ago
• ponnhide / plasmidviewer
  Python library to visualize circular plasmid maps
  ☆28Updated 4 years ago
• Adrian-Cantu / PhANNs
  ☆21Updated 3 years ago
• dbikard / genomenotebook
  A genome browser in your Jupyter notebook
  ☆31Updated 7 months ago
• althonos / pyfamsa
  Cython bindings and Python interface to FAMSA, an algorithm for ultra-scale multiple sequence alignments.
  ☆37Updated last week
• jambler24 / GenGraph
  A repository for the GenGraph toolkit for the creation and manipulation of graph genomes
  ☆51Updated 4 years ago
• KatyBrown / CIAlign
  ☆133Updated last year
• Edinburgh-Genome-Foundry / genome_collector
  Easily download genomes and build BLAST/Bowtie indexes in Python
  ☆22Updated 3 years ago
• broadinstitute / adapt
  A package for designing activity-informed nucleic acid diagnostics for viruses.
  ☆34Updated 2 years ago
• Edinburgh-Genome-Foundry / Plateo
  🤖 Python biolab automation library: parsers, report generators, picklist simulators, and more
  ☆45Updated 6 months ago
• nebiolabs / domainator
  A flexible and modular software suite for domain-based gene neighborhood and protein search, extraction, and clustering.
  ☆27Updated this week
• morgannprice / PaperBLAST
  PaperBLAST: find papers about a protein or its homologs
  ☆48Updated this week
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆41Updated last week
• cogent3 / cogent3
  Comparative Genomics Toolkit 3
  ☆133Updated this week
• althonos / pytrimal
  Cython bindings and Python interface to trimAl, a tool for automated alignment trimming. Now with SIMD!
  ☆27Updated 2 weeks ago
• BigDataBiology / macrel
  Predict AMPs in (meta)genomes and peptides
  ☆87Updated 3 weeks ago
• Edinburgh-Genome-Foundry / crazydoc
  Read DNA sequences from colourful Microsoft Word documents
  ☆34Updated 7 months ago
• BackofenLab / CRISPRidentify
  ☆31Updated 11 months ago
• HadrienG / taxadb
  locally query the ncbi taxonomy
  ☆39Updated 3 years ago
• moshi4 / phyTreeViz
  Simple phylogenetic tree visualization python package for phylogenetic analysis
  ☆63Updated last year
• bhattlab / SmORFinder
  A command line tool to identify and annotate small proteins in microbial sequencing datasets.
  ☆25Updated 2 years ago
• rnajena / vidhop
  VIDHOP is a virus host predicting tool. Its able to predict influenza A virus, rabies lyssavirus and rotavirus A.
  ☆23Updated 2 years ago
• BackofenLab / CRISPRcasIdentifier
  Machine learning for accurate identification and classification of CRISPR-Cas systems
  ☆23Updated 11 months ago
• glarue / jgi-query
  A simple command-line tool to download data from Joint Genome Institute databases
  ☆52Updated 2 years ago
• Benson-Genomics-Lab / IRF
  Inverted Repeats Finder: a program to analyze DNA and RNA sequences
  ☆20Updated 9 months ago
• medema-group / bigslice
  A highly scalable, user-interactive tool for the large scale analysis of Biosynthetic Gene Clusters data
  ☆90Updated 4 months ago
• althonos / pyrodigal-gv
  A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
  ☆20Updated 2 weeks ago