Alternatives and similar repositories for codoff

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

• jolespin / pykofamsearch
  Fast implementation of KofamScan optimized for high-memory systems using PyHMMER
  ☆14Updated last month
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆26Updated last month
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆20Updated 9 months ago
• KatyBrown / plot_phylo
  Python package to plot a phylogenetic tree on an existing matplotlib axis.
  ☆25Updated 2 months ago
• moshi4 / pybarrnap
  Python implementation of barrnap (Bacterial ribosomal RNA predictor)
  ☆22Updated 8 months ago
• FredHutch / octapus
  Bacterial Operon Finder for Functional Organization
  ☆15Updated last year
• ablab / nerpa
  ☆16Updated 6 months ago
• althonos / pyrodigal-gv
  A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.
  ☆19Updated last month
• esteinig / brick
  BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons
  ☆18Updated 6 months ago
• phiweger / uv
  Finding prophage regions in bacterial genomes using brute force
  ☆21Updated 2 years ago
• genomic-medicine-sweden / TRANA
  A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
  ☆16Updated 3 weeks ago
• DNKonanov / Snapper
  snapper
  ☆13Updated last year
• refresh-bio / clusty
  ☆12Updated 4 months ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆20Updated 8 months ago
• althonos / pyfastani
  Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.
  ☆22Updated last month
• dib-lab / charcoal
  Remove contaminated contigs from genomes using k-mers and taxonomies.
  ☆59Updated last year
• cruizperez / FastAAI
  ☆24Updated 8 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆55Updated 5 months ago
• rcedgar / newick
  Manipulate and generate figures for trees in Newick format
  ☆22Updated 2 months ago
• JMencius / LongBow
  Basecalling configuration prediction through FASTQ files
  ☆23Updated 4 months ago
• JensUweUlrich / Taxor
  Fast and space-efficient taxonomic classification of long reads
  ☆43Updated last month
• niemasd / ViralConsensus
  Fast viral consensus genome reconstruction
  ☆25Updated 3 months ago
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆37Updated last year
• kshulgina / codetta
  ☆51Updated 5 months ago
• unipept / FragGeneScanRs
  Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.
  ☆27Updated 2 weeks ago
• sourmash-bio / sourmash_plugin_branchwater
  fast, multithreaded sourmash operations: search, compare, and gather.
  ☆23Updated last week
• UriNeri / RVMT
  Code, scripts, some logs and general misc. from to the RNA viruses in MetaTranscriptome discovery project.
  ☆11Updated 2 years ago
• RIVM-bioinformatics / AmpliGone
  A tool in order to accurately remove primer sequences from NGS reads in an amplicon experiment
  ☆20Updated 4 months ago
• phiweger / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆15Updated 7 years ago
• pirovc / multitax
  Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
  ☆45Updated 3 months ago