Alternatives and similar repositories for MicroBench

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

• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆60Updated 2 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆45Updated 3 months ago
• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆79Updated last month
• rrwick / Verticall
  Recombination-free trees
  ☆59Updated 5 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆53Updated 4 months ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆59Updated last week
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated last week
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆31Updated last month
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated last month
• gbouras13 / pypolca
  Standalone Python re-implementation of the POLCA polisher from MaSuRCA
  ☆38Updated last week
• centre-pathogen-genomics / snippy-ng
  ☆20Updated last week
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆88Updated last month
• genotoul-bioinfo / Binette
  A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.
  ☆39Updated last month
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆49Updated last month
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆41Updated 4 months ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆50Updated 4 years ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆30Updated 2 weeks ago
• OLF-Bioinformatics / VariantDetective
  Identify short variants and structural variants from raw sequencing data or genomic sequences
  ☆32Updated last year
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆76Updated 2 years ago
• RabbitBio / RabbitTClust
  RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches
  ☆47Updated last month
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆30Updated last year
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated last year
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆36Updated 4 months ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆39Updated 10 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆86Updated 4 months ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• virus-evolution / gofasta
  ☆36Updated 4 months ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆96Updated 11 months ago