Alternatives and similar repositories for spaced-seeds-for-metagenomics

Users that are interested in spaced-seeds-for-metagenomics are comparing it to the libraries listed below

• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 years ago
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 2 months ago
• bede / seqsum
  Robust individual and aggregate checksums for nucleotide sequences
  ☆17Updated last year
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• Malfoy / NIQKI
  Next Index to Query Kmer Intersection
  ☆16Updated 2 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆21Updated 6 months ago
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆25Updated 2 years ago
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆46Updated 6 years ago
• vice87 / gam-ngs
  Genomic Assemblies Merger for NGS
  ☆26Updated last year
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆33Updated 3 years ago
• camillescott / shmlast
  blast, shmlast
  ☆21Updated 5 years ago
• mreppell / Karp
  Accurate and fast taxonomic classification using pseudoaligning
  ☆21Updated 8 years ago
• langmead-lab / vargas
  ☆24Updated 2 months ago
• iqbal-lab-org / simutator
  Simulate mutations in genomes
  ☆15Updated 5 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• Kingsford-Group / splitsbt
  ☆18Updated 7 years ago
• abdullah009 / kcmbt_mt
  k-mer Counter based on Multiple Burst Trees (multi-threaded)
  ☆13Updated 9 years 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
• scwatts / genome_painter
  Paint genomes with taxa-specific k-mer probabilities
  ☆15Updated 3 years ago
• iqbal-lab-org / make_prg
  Code to create a PRG from a Multiple Sequence Alignment file
  ☆25Updated last month
• natir / fpa
  Filter of Pairwise Alignement
  ☆44Updated 3 years ago
• VGP / vgp-tools
  ☆28Updated 6 months ago
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆52Updated 7 months ago
• jaudoux / kamix
  Index and query k-mer matrices in BGZF
  ☆12Updated 7 years ago
• usnistgov / pepr
  Pipeline for Evaluating Prokaryotic References
  ☆11Updated 9 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
• mariokostelac / ra-integrate
  DNA assembler developed on FER (Croatia), RBI (Croatia) and GIS (Singapore)
  ☆18Updated 9 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago