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
  ☆21Updated 2 months ago
• gcgreenberg / LexicHash
  A novel method for sequence similarity estimation
  ☆28Updated last year
• jheinz27 / breakinator
  Tool to flag foldback and chimeric artifacts in long-read sequence alignment files
  ☆18Updated 2 weeks ago
• bo1929 / krepp
  A k-mer-based maximum likelihood method for estimating distances of reads to genomes and phylogenetic placement.
  ☆18Updated this week
• 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
  ☆32Updated 2 months ago
• rrwick / Are-reads-required
  ☆10Updated 8 months ago
• aljpetri / isONclust3
  De novo clustering of long transcript reads into genes
  ☆19Updated last month
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 2 weeks ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆24Updated 3 months ago
• AdamCicherski / AlfaPang
  AlfaPang builds pangenome graphs without alignments or references.
  ☆15Updated 3 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• at-cg / mm2-plus
  Fast long-read mapper and whole-genome aligner (accelerated version of minimap2)
  ☆36Updated last month
• sid-krish / rhometa
  metagenome population recombination rate estimation pipeline
  ☆12Updated 2 months ago
• fpusan / SuperPang
  Non-redundant pangenome assemblies from multiple genomes or bins
  ☆15Updated 8 months ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆20Updated last year
• lrobidou / KFC
  ☆19Updated 11 months ago
• StephenHwang / MEMO
  MEMO: MEM-based pangenome indexing for k-mer queries
  ☆20Updated last year
• TravisWheelerLab / BATH
  Better Alignments with Translated HMMER
  ☆24Updated this week
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Updated last year
• bioinf-mcb / MANIAC
  Computation of average nucleotide identity with the use of MMseqs2
  ☆15Updated last year
• fawaz-dabbaghieh / gfa_subgraphs
  Extracts subgraphs or components from a graph in GFA format
  ☆24Updated last year
• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆17Updated 3 weeks ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆25Updated last week
• IndexThePlanet / LoganSearch
  A k-mer search engine for all Sequence Read Archive public accessions
  ☆36Updated last year
• ekg / pafcheck
  PAF (pairwise alignment format) validator based on extended CIGAR strings
  ☆15Updated 6 months ago
• jonas-fuchs / virHEAT
  Visualize microbial evolution at the SNP level!
  ☆15Updated 5 months ago
• josephpetrone / RESCUE
  Resolving Species Level Classification Using Emu
  ☆14Updated last year
• sanger-pathogens / panito
  Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment
  ☆16Updated 7 years ago