Alternatives and similar repositories for quark

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

• langmead-lab / vargas
  ☆25Updated last week
• lynxoid / nimbliner
  nimble aligner that will map your reads to the references on a laptop
  ☆12Updated 8 years ago
• nh13 / fqme
  ☆21Updated 9 months ago
• COMBINE-lab / shoal
  Improved multi-sample transcript abundance estimates using adaptive priors
  ☆20Updated 6 years ago
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 6 years ago
• edawson / mkmh
  Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.
  ☆24Updated 4 years ago
• medvedevgroup / UST
  ☆25Updated 4 years ago
• Kmer-File-Format / kff-reference
  Contains the description of a file format to store kmers and associated values
  ☆33Updated 3 years ago
• hlilab / hlilab.github.io
  ☆16Updated last month
• cdarby / genomicsjc
  Johns Hopkins University student-led genomics paper discussion group
  ☆13Updated 5 years ago
• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated 10 months ago
• namsyvo / IVC
  Integrated Variant Caller
  ☆17Updated 7 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆16Updated 7 years ago
• seqan / vaquita
  Identification of structural variations
  ☆12Updated 3 years ago
• prophyle / prophasm
  ProphAsm – a rapid computation of simplitigs directly from k-mer sets
  ☆26Updated 2 years ago
• natir / nuc2bit
  ☆14Updated 4 years ago
• ratschlab / tensor-sketch-alignment
  Code for the paper Aligning Distant Sequences to Graphs using Long Seed Sketches.
  ☆13Updated 2 years ago
• mklarqvist / libflagstats
  Efficient C functions to compute the summary statistics (flagstats) for sequencing read sets.
  ☆15Updated 5 years ago
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated 11 months ago
• COMBINE-lab / piscem
  Rust wrapper for the next generation (still currently in C++)
  ☆28Updated last month
• richarddurbin / modimizer
  a toolset for fast DNA read set matching and assembly using a new type of reduced kmer
  ☆37Updated 4 years ago
• richarddurbin / hash10x
  a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly
  ☆15Updated 5 years ago
• Kingsford-Group / variantstore
  VariantStore: A Large-Scale Genomic Variant Search Index
  ☆39Updated 4 years ago
• rchikhi / rust-seq2kminmers
  Iterate k-min-mers from a DNA sequence in Rust
  ☆13Updated last year
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 7 years ago
• Kingsford-Group / splitsbt
  ☆18Updated 7 years ago
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• TavorB / spectral_jaccard_similarity
  ☆14Updated 2 years ago
• mskilab-org / pgv
  Pan gGnome Viewer
  ☆10Updated last month
• VeryAmazed / digest
  ☆15Updated 3 weeks ago