Alternatives and similar repositories for VStrains

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

• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆63Updated 9 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆52Updated 4 years ago
• RolandFaure / Hairsplitter
  Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.
  ☆35Updated 8 months ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆50Updated 3 years ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 4 months ago
• Dmitry-Antipov / viralFlye
  viralFlye pipeline
  ☆18Updated last year
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆30Updated 2 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated 2 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated 4 months ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆36Updated 2 weeks ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆33Updated 6 months ago
• bacpop / PopPIPE
  Population analysis PIPEline 🛠🧬
  ☆22Updated 2 weeks ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆49Updated 4 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• treangenlab / Olivar
  Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens
  ☆36Updated last week
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆30Updated 6 years ago
• mbhall88 / classification_benchmark
  Benchmarking different ways of doing read (taxonomic) classification, with a focus on removal of contamination and MTB classification
  ☆14Updated last year
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆22Updated 5 months ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆34Updated last year
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆47Updated last month
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆50Updated 2 years ago
• farhat-lab / fast-lineage-caller
  ☆14Updated 4 years ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆29Updated 2 years ago
• EnzoAndree / FastMLST
  ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies
  ☆27Updated 2 months ago
• Rinoahu / SwiftOrtho
  A high performance tool to identify orthologs and paralogs across genomes.
  ☆27Updated 2 years ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆34Updated last week
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆43Updated 5 years ago
• HKU-BAL / MegaPath-Nano
  MegaPath-Nano: Accurate Compositional Analysis and Drug-level Antimicrobial Resistance Detection Software for Oxford Nanopore Long-read M…
  ☆13Updated 3 years ago