Alternatives and similar repositories for REINDEER:

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

• oma219 / spumoni
  Pan-Genomic Matching Statistics
  ☆52Updated last year
• lh3 / sdust
  Symmetric DUST for finding low-complexity regions in DNA sequences
  ☆37Updated last year
• rcedgar / urmap
  URMAP ultra-fast read mapper
  ☆38Updated 4 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆37Updated 5 years ago
• morispi / CONSENT
  Scalable long read self-correction and assembly polishing with multiple sequence alignment
  ☆55Updated last year
• nanoporetech / ont_tutorial_basicqc
  A bioinformatics tutorial demonstrating a best-practice workflow to review a flowcell's sequence_summary.txt
  ☆30Updated 4 years ago
• schmeing / ReSeq
  More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original
  ☆52Updated 2 years ago
• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆80Updated last week
• lh3 / etrf
  Exact Tandem Repeat Finder (not a TRF replacement)
  ☆48Updated 5 years ago
• UCSC-nanopore-cgl / MarginPolish
  MarginPolish: Graph based assembly polishing
  ☆46Updated 4 years ago
• shenwei356 / unikmer
  A versatile toolkit for k-mers with taxonomic information
  ☆77Updated 8 months ago
• atifrahman / HAWK
  Hitting associations with k-mers
  ☆45Updated 2 years ago
• mourisl / centrifuger
  Classifier for metagenomic sequences using FM-index with run-block compressed BWT.
  ☆56Updated 3 weeks ago
• epi2me-labs / wf-alignment
  ☆27Updated 2 months ago
• cpockrandt / PhyloCSFpp
  PhyloCSF++ computes PhyloCSF tracks for whole-genome multiple sequence alignments, scores single MSA, annotates CDS features in GFF/GTF f…
  ☆31Updated 3 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆78Updated last year
• nanoporetech / pipeline-nanopore-denovo-isoforms
  Pipeline for de novo clustering of long transcriptomic reads
  ☆26Updated 3 years ago
• biocorecrg / BioNextflow
  A collection of modules and sub-workflows for Nextflow
  ☆26Updated this week
• Psy-Fer / blue-crab
  crab go snap snap
  ☆38Updated 2 months ago
• lh3 / htsbox
  My experimental tools on top of htslib. NOT OFFICIAL!!!
  ☆55Updated last year
• wdecoster / nanolyse
  Remove lambda phage reads from a fastq file
  ☆29Updated 2 years ago
• mattloose / RUscripts
  Scripts for implementing read until and other examples.
  ☆31Updated 5 years ago
• eclarke / komplexity
  A method of assessing sequence complexity based on kmer frequencies
  ☆31Updated 7 years ago
• nanoporetech / pyspoa
  Python bindings to spoa
  ☆20Updated last year
• alignoth / alignoth
  Creating alignment plots from bam files
  ☆56Updated this week
• conchoecia / pauvre
  Pauvre: QC and genome browser plotting Oxford Nanopore and PacBio long reads.
  ☆54Updated 5 months ago
• nlapier2 / Metalign
  Metalign: efficient alignment-based metagenomic profiling via containment min hash
  ☆33Updated last year
• pachterlab / metakallisto
  Using kallisto for metagenomic analysis
  ☆50Updated 8 years ago
• evotools / nf-LO
  A Nextflow workflow to generate lift over files for any pair of genomes
  ☆64Updated last week
• tlemane / kmindex
  Index kmtricks bf matrices
  ☆43Updated 4 months ago