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
  ☆116Updated last year
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆112Updated 5 months ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆141Updated last year
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆123Updated last year
• ddarriba / modeltest
  Best-fit model selection
  ☆83Updated last year
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆100Updated 3 years ago
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆58Updated last year
• wwood / singlem
  Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
  ☆165Updated last week
• chasewnelson / SNPGenie
  Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data
  ☆117Updated 2 years ago
• MrOlm / inStrain
  Bioinformatics program inStrain
  ☆176Updated 4 months ago
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 3 weeks ago
• mjsull / Easyfig
  Development version of Easyfig
  ☆100Updated last year
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆135Updated 2 years ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆140Updated last year
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆104Updated 4 years ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆88Updated last year
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆103Updated 8 months ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆204Updated last year
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆77Updated 2 years 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…
  ☆145Updated this week
• nylander / catfasta2phyml
  Concatenates FASTA formatted files to one "phyml" (PHYLIP) formatted file
  ☆73Updated last year
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆148Updated 2 weeks ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆141Updated last month
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆139Updated 6 months ago
• klebgenomics / Kleborate
  ☆129Updated last week
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆130Updated 11 months ago
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆84Updated 3 years ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆143Updated last month
• simroux / VirSorter
  Source code of the VirSorter tool, also available as an App on CyVerse/iVirus (https://de.iplantcollaborative.org/de/)
  ☆101Updated 5 years ago