Alternatives and similar repositories for emerald:

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

• RabbitBio / RabbitTClust
  RabbitTClust: enabling fast clustering analysis of millions bacteria genomes with MinHash sketches
  ☆44Updated 10 months ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆24Updated last year
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆50Updated 8 months ago
• drboothtj / getphylo
  a python package for automated generation of phylogenetic trees from genbank files
  ☆21Updated 3 weeks ago
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆45Updated this week
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• Sudaraka88 / LDWeaver
  Genomewide Epistasis Analysis on Bacteria
  ☆14Updated 6 months ago
• moshi4 / pybarrnap
  Python implementation of barrnap (Bacterial ribosomal RNA predictor)
  ☆17Updated 2 months ago
• KoslickiLab / YACHT
  A mathematically characterized hypothesis test for organism presence/absence in a metagenome
  ☆30Updated 2 weeks ago
• algbio / SRFAligner
  ☆13Updated this week
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆39Updated 3 weeks ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆27Updated 11 months ago
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆23Updated 11 months ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆51Updated 3 months ago
• fawaz-dabbaghieh / bubble_gun
  ☆41Updated last month
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 3 weeks ago
• steineggerlab / unicore
  Universal and efficient core gene phylogeny with Foldseek and ProstT5
  ☆54Updated last week
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆30Updated last year
• gbouras13 / pypolca
  Standalone Python re-implementation of the POLCA polisher from MaSuRCA
  ☆33Updated 2 weeks ago
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆20Updated 5 months ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 2 years ago
• HaploKit / vechat
  Correcting errors in noisy long reads using variation graphs
  ☆51Updated 2 years ago
• karel-brinda / MiniPhy
  Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]
  ☆22Updated this week
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.
  ☆44Updated 3 weeks ago
• althonos / pyorthoani
  A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.
  ☆25Updated 3 weeks ago
• danny-wilson / genomegaMap
  Within-species genome-wide dN/dS estimation from very many genomes
  ☆19Updated 4 years ago
• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆11Updated 4 months ago
• SegataLab / viromeqc
  ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…
  ☆18Updated 2 years ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆24Updated last year
• Kalan-Lab / codoff
  codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, phage, etc.) relative to the fu…
  ☆11Updated 8 months ago