Alternatives and similar repositories for clusty

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

• AllTheBacteria / Phylign
  Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…
  ☆12Updated last year
• pg-space / panspace
  Embedding-based indexing for compact storage and rapid querying of bacterial pan-genomes
  ☆12Updated last week
• bo1929 / krepp
  A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
  ☆16Updated this week
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 2 months ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆23Updated 2 weeks ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆13Updated 5 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 9 months ago
• sanger-pathogens / panito
  Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment
  ☆16Updated 6 years ago
• rrwick / Are-reads-required
  ☆10Updated 4 months ago
• lrobidou / KFC
  ☆19Updated 8 months ago
• salzberg-lab / bolotie
  SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity
  ☆13Updated 2 years ago
• amkram / shusher
  Private, browser-based placement of genome sequences on phylogenetic trees using UShER.
  ☆11Updated 11 months ago
• kangxiongbin / HyLight
  HyLight is a strain aware de novo assembly method based on the overlap-layout-consensus (OLC) paradigm that leverages the strengths of NG…
  ☆12Updated last year
• JMencius / LongBow
  Basecalling configuration prediction through FASTQ files
  ☆31Updated 5 months ago
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆25Updated 11 months ago
• gcgreenberg / LexicHash
  A novel method for sequence similarity estimation
  ☆28Updated last year
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Updated 10 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• TravisWheelerLab / BATH
  Better Alignments with Translated HMMER
  ☆23Updated 2 weeks ago
• bluenote-1577 / devider
  Dividing heterogeneous long-read sequencing into groups with de Bruijn graphs
  ☆31Updated last month
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆23Updated last year
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆15Updated 2 months ago
• mbhall88 / skc
  Shared k-mer content between two genomes
  ☆18Updated 2 years ago
• iqbal-lab-org / varifier
  Variant call verification
  ☆16Updated 5 months ago
• jfass / apc
  (a) (p)erfect (c)ircle? ... tests DNA sequences for overlapping ends, then trims and rejoins, and aligns reads to test the join
  ☆11Updated 4 years ago
• pierrepeterlongo / kmer2sequences
  Given a set of kmers (fasta format) and a set of sequences (fasta format), this tool will extract the sequences containing the kmers.
  ☆21Updated 2 years ago
• at-cg / PanAligner
  Long read aligner for cyclic and acyclic pangenome graphs
  ☆39Updated last year
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆35Updated 4 months ago
• sid-krish / rhometa
  metagenome population recombination rate estimation pipeline
  ☆12Updated 2 weeks ago
• algbio / SRFAligner
  ☆13Updated 2 months ago