Alternatives and similar repositories for get_homologues

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

• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆117Updated last year
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 2 months ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆60Updated last year
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆145Updated this week
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆101Updated 3 years ago
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆114Updated 7 months ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆144Updated 2 weeks ago
• ddarriba / modeltest
  Best-fit model selection
  ☆85Updated last year
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆106Updated 4 years ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆88Updated 2 years ago
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆118Updated 2 years ago
• mjsull / Easyfig
  Development version of Easyfig
  ☆102Updated last year
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated 2 years ago
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆79Updated 2 years ago
• nylander / catfasta2phyml
  Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file
  ☆73Updated last year
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆180Updated 7 months ago
• hahnlab / CAFE
  Analyze changes in gene family size and provide a statistical foundation for evolutionary inferences.
  ☆118Updated 4 years ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆208Updated last year
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆142Updated 2 years ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆140Updated this week
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆106Updated 10 months ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆151Updated 8 months ago
• marbl / parsnp
  Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…
  ☆148Updated 2 months ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆147Updated 3 weeks ago
• klebgenomics / Kleborate
  ☆134Updated last week
• marekborowiec / AMAS
  Calculate summary statistics and manipulate multiple sequence alignments
  ☆90Updated last year
• cmks / DAS_Tool
  DAS Tool
  ☆161Updated last year
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆145Updated 3 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• AnantharamanLab / VIBRANT
  Virus Identification By iteRative ANnoTation
  ☆177Updated last year