Alternatives and similar repositories for NanoVarBench

Users that are interested in NanoVarBench 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
• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆120Updated last week
• rrwick / Verticall
  Recombination-free trees
  ☆63Updated 4 months ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆44Updated 9 months ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆46Updated last week
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆52Updated 4 years ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆49Updated this week
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 3 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 3 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆40Updated 4 months ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆64Updated 7 months ago
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated 2 years ago
• mbhall88 / nohuman
  Remove human reads from a sequencing run
  ☆47Updated last month
• metagentools / MetaCoAG
  🚦🧬 Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
  ☆68Updated last year
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆103Updated 3 weeks ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆98Updated last week
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆46Updated last week
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 9 months ago
• bacpop / PopPIPE
  Population analysis PIPEline 🛠🧬
  ☆22Updated 3 weeks ago
• ku-cbd / PhageBoost
  Rapid discovery of novel prophages using biological feature engineering and machine learning
  ☆36Updated last year
• metagentools / GraphBin2
  ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs
  ☆37Updated 3 months ago
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆30Updated 2 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated 2 years ago
• iqtree / piqtree
  A Python library that exposes features from IQ-TREE - efficient software for phylogenomic inference
  ☆39Updated last week
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆28Updated this week
• treangenlab / lemur
  Lemur is a tool for rapid and accurate taxonomic profiling on long-read metagenomic datasets
  ☆25Updated 6 months ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆34Updated 6 months ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 5 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated 2 months ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago