Alternatives and similar repositories for inStrain

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

• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆150Updated 9 months ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated 2 years ago
• EBI-Metagenomics / emg-viral-pipeline
  VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies
  ☆145Updated 2 weeks ago
• biobakery / phylophlan
  Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
  ☆159Updated 6 months ago
• cmks / DAS_Tool
  DAS Tool
  ☆163Updated last year
• wwood / singlem
  Novelty-inclusive microbial (and now dsDNA phage) community profiling of shotgun metagenomes
  ☆176Updated last week
• bjtully / BioData
  All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
  ☆80Updated 2 years ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆118Updated last year
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆87Updated 2 years ago
• lskatz / mashtree
  Create a tree using Mash distances
  ☆177Updated 2 years ago
• AnantharamanLab / VIBRANT
  Virus Identification By iteRative ANnoTation
  ☆181Updated last year
• linnabrown / run_dbcan
  Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…
  ☆155Updated 8 months ago
• snayfach / MGV
  Supporting code for uncultivated gut virus manuscript
  ☆77Updated 2 years ago
• bluenote-1577 / skani
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆230Updated 2 months ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆122Updated last week
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆97Updated last month
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆142Updated 2 years ago
• Finn-Lab / MAG_Snakemake_wf
  Recovery of prokaryotic genomes from shotgun metagenomic sequencing data
  ☆62Updated 4 years ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆107Updated 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
• rrwick / Perfect-bacterial-genome-tutorial
  ☆152Updated last year
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆268Updated 2 months ago
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆142Updated 2 years ago
• patrickwest / EukRep
  Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
  ☆75Updated last year
• soedinglab / metaeuk
  MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
  ☆201Updated 4 months ago
• CAMI-challenge / CAMISIM
  CAMISIM: Simulating metagenomes and microbial communities
  ☆220Updated 2 weeks ago
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 3 months ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆224Updated 2 weeks ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆147Updated 2 weeks ago
• fwhelan / coinfinder
  A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
  ☆109Updated 2 years ago