Alternatives and similar repositories for mashing-pumpkins

Users that are interested in mashing-pumpkins are comparing it to the libraries listed below

• bioinfologics / sdg
  Sequence Distance Graph framework: graph + reads + mapping + analysis
  ☆26Updated 3 years ago
• medvedevgroup / bloomtree-allsome
  Sequence Bloom Trees with All/Some split
  ☆11Updated 6 years ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 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
• tseemann / homebrew-bioinformatics-linux
  Homebrew formulae for bioinformatics software only available for Linux
  ☆27Updated 6 years ago
• koelling / dnacol
  Color DNA/RNA bases in terminal output
  ☆21Updated 8 years ago
• dcjones / isolator
  Rapid and robust analysis of RNA-Seq experiments.
  ☆32Updated 9 years ago
• Kingsford-Group / splitsbt
  ☆18Updated 7 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 last year
• iqbal-lab / cortex
  reference free variant assembly
  ☆34Updated 2 years ago
• edawson / rkmh
  Classify sequencing reads using MinHash.
  ☆48Updated 5 years ago
• kdm9 / kWIP
  De novo estimates of genetic relatedness from next-gen sequencing data
  ☆45Updated 6 years ago
• BenLangmead / qtip
  Qtip: a tandem simulation approach for accurately predicting read alignment mapping qualities
  ☆25Updated 5 years ago
• bede / tictax
  Streaming sequence classification with web services ✓📌
  ☆19Updated 2 years ago
• mreppell / Karp
  Accurate and fast taxonomic classification using pseudoaligning
  ☆21Updated 8 years ago
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 3 years ago
• gregorykucherov / spaced-seeds-for-metagenomics
  ☆13Updated 9 years ago
• DecodeGenetics / BamHash
  ☆36Updated 5 years ago
• lynxoid / nimbliner
  nimble aligner that will map your reads to the references on a laptop
  ☆11Updated 8 years ago
• will-rowe / hulk
  Histosketching Using Little Kmers
  ☆56Updated 2 years ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆33Updated 3 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
• hallamlab / LAST-Plus
  Parallel implementation of the LAST aligner
  ☆18Updated 8 years ago
• namsyvo / IVC
  Integrated Variant Caller
  ☆17Updated 7 years ago
• DecodeGenetics / popvcf
  Lossless VCF compression
  ☆20Updated 3 years ago
• LiuBioinfo / SeqOthello
  SeqOthello supports fast coverage query and containment query.
  ☆12Updated 6 years ago
• camillescott / shmlast
  blast, shmlast
  ☆21Updated 5 years ago
• dkoslicki / CMash
  Fast and accurate set similarity estimation via containment min hash
  ☆42Updated last year
• uio-cels / genomicgraphcoords
  Online material and code base for the article Coordinates and Intervals in Graph Based Reference Genomes
  ☆11Updated 8 years ago
• sourmash-bio / databases
  Build sourmash databases for genbank.
  ☆11Updated 2 years ago