Alternatives and similar repositories for MicroBench

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

• bluenote-1577 / myloasm
  A new high-resolution long-read metagenome assembler for even noisy reads
  ☆94Updated this week
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆61Updated 3 months ago
• iqbal-lab-org / pling
  Plasmid analysis using rearrangement distances
  ☆45Updated 2 weeks ago
• rrwick / Verticall
  Recombination-free trees
  ☆60Updated 3 weeks ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆30Updated 2 months ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated 3 weeks ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆52Updated 5 months ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆50Updated 3 years ago
• Ivarz / Conifer
  Calculate confidence scores from Kraken2 output
  ☆22Updated last year
• gbouras13 / pypolca
  Standalone Python re-implementation of the POLCA polisher from MaSuRCA
  ☆39Updated last month
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆61Updated 3 weeks ago
• genotoul-bioinfo / Binette
  A fast and accurate binning refinement tool to constructs high quality MAGs from the output of multiple binning tools.
  ☆39Updated last week
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆39Updated 3 months ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆76Updated last week
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆50Updated 4 years ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆92Updated last month
• OLF-Bioinformatics / VariantDetective
  Identify short variants and structural variants from raw sequencing data or genomic sequences
  ☆32Updated last year
• simonrharris / SKA
  Split Kmer Analysis
  ☆65Updated 3 years ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆41Updated 5 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆47Updated 3 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆87Updated 4 months ago
• gtonkinhill / tracs
  Fast pairwise transmission inference from single genome and/or metagenomic data
  ☆21Updated last month
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆43Updated 2 months ago
• MicrobialDarkMatter / nanomotif
  Nanomotif - a tool for identifying methylated motifs in metagenomic samples
  ☆30Updated last week
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆48Updated 2 weeks ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 4 months ago
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆75Updated 2 months ago
• vikshiv / mumemto
  Mumemto: multi-MUM and MEM finding across pangenomes
  ☆111Updated 2 months ago