Alternatives and similar repositories for cdhit:

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

• ebi-pf-team / interproscan
  Genome-scale protein function classification
  ☆323Updated last week
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆616Updated 11 months ago
• hyattpd / Prodigal
  Prodigal Gene Prediction Software
  ☆484Updated last year
• tseemann / prokka
  Rapid prokaryotic genome annotation
  ☆890Updated last year
• EddyRivasLab / hmmer
  HMMER: biological sequence analysis using profile HMMs
  ☆345Updated 3 months ago
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆755Updated 6 months ago
• rcedgar / muscle
  Multiple sequence and structure alignment with top benchmark scores scalable to thousands of sequences. Generates replicate alignments, e…
  ☆242Updated 3 weeks ago
• jorvis / biocode
  Bioinformatics code libraries and scripts
  ☆523Updated 2 months ago
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆572Updated 5 months ago
• oschwengers / bakta
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆506Updated last month
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆826Updated last week
• ViennaRNA / ViennaRNA
  The ViennaRNA Package
  ☆342Updated 6 months ago
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆805Updated 9 months ago
• antismash / antismash
  antiSMASH
  ☆206Updated last week
• kblin / ncbi-genome-download
  Scripts to download genomes from the NCBI FTP servers
  ☆1,004Updated 9 months ago
• DerrickWood / kraken2
  The second version of the Kraken taxonomic sequence classification system
  ☆784Updated 2 weeks ago
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆596Updated 9 months ago
• mdshw5 / pyfaidx
  Efficient pythonic random access to fasta subsequences
  ☆468Updated 6 months ago
• tanghaibao / jcvi
  Python library to facilitate genome assembly, annotation, and comparative genomics
  ☆817Updated 2 weeks ago
• mummer4 / mummer
  Mummer alignment tool
  ☆501Updated 3 months ago
• iqtree / iqtree2
  IQ-TREE software version 2: phylogenetics by maximum likelihood
  ☆282Updated last week
• ablab / quast
  Genome assembly evaluation tool
  ☆431Updated 5 months ago
• ablab / spades
  SPAdes Genome Assembler
  ☆819Updated this week
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆409Updated 4 months ago
• chhylp123 / hifiasm
  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
  ☆614Updated last month
• Gaius-Augustus / BRAKER
  BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…
  ☆400Updated 3 months ago
• usadellab / Trimmomatic
  ☆242Updated 11 months ago
• metagenome-atlas / atlas
  ATLAS - Three commands to start analyzing your metagenome data
  ☆387Updated last month
• soedinglab / hh-suite
  Remote protein homology detection suite.
  ☆569Updated 6 months ago
• primer3-org / primer3
  Primer3 is a command line tool to select primers for polymerase chain reaction (PCR).
  ☆247Updated this week