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

• bede / kindel
  Indel-aware consensus for aligned BAM
  ☆21Updated 5 months ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 5 years ago
• bede / seqsum
  Robust individual and aggregate checksums for nucleotide sequences
  ☆17Updated 2 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
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆25Updated 2 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• Malfoy / NIQKI
  Next Index to Query Kmer Intersection
  ☆17Updated 2 years ago
• richarddurbin / syng
  syncmer graphs, and perhaps other sorts of sequence graphs
  ☆24Updated 2 weeks ago
• Kingsford-Group / splitsbt
  ☆18Updated 7 years ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆34Updated 3 years ago
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• Malfoy / BGREAT
  de Bruijn Graph REAd mapping Tool
  ☆14Updated 8 years ago
• vice87 / gam-ngs
  Genomic Assemblies Merger for NGS
  ☆26Updated 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 7 years ago
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• camillescott / shmlast
  blast, shmlast
  ☆21Updated 5 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
• langmead-lab / vargas
  ☆24Updated 4 months ago
• nanoporetech / minimappy
  Python bindings to minimap2
  ☆16Updated 8 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• mreppell / Karp
  Accurate and fast taxonomic classification using pseudoaligning
  ☆21Updated 8 years ago
• COMBINE-lab / mim
  A small, auxiliary index to massively improve parallel fastq parsing
  ☆30Updated last week
• artic-network / readucks
  Nanopore read de-multiplexer
  ☆13Updated 5 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago
• antrec / spectrassembler
  Tool (experimental) to compute layout from overlaps with spectral algorithm
  ☆11Updated 8 years ago
• scwatts / genome_painter
  Paint genomes with taxa-specific k-mer probabilities
  ☆15Updated 3 years ago
• thegenemyers / DFA-SPEC
  The Dagstuhl Format for Assembly
  ☆13Updated 8 years ago
• medvedevgroup / bloomtree-allsome
  Sequence Bloom Trees with All/Some split
  ☆11Updated 7 years ago
• VGP / vgp-tools
  ☆28Updated 9 months ago
• iqbal-lab-org / minos
  Variant call adjudication
  ☆16Updated last year