Alternatives and similar repositories for LAPIS-SILO:

Users that are interested in LAPIS-SILO are comparing it to the libraries listed below

• MDU-PHL / pango-collapse
  app to collapse Pango lineages for reporting
  ☆11Updated 10 months ago
• pathoplexus / pathoplexus
  An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
  ☆31Updated this week
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆29Updated this week
• chrisruis / bammix
  Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures
  ☆13Updated 2 years ago
• GenSpectrum / LAPIS
  An API, a query engine, and a database schema for genomic sequences; currently with a focus on SARS-CoV-2
  ☆22Updated this week
• corneliusroemer / pango_aliasor
  Utility to alias and dealias pango lineages
  ☆22Updated last year
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆22Updated last week
• rust-seq / minimizer-iter
  Iterate over minimizers of a DNA sequence
  ☆27Updated 6 months ago
• natir / nuc2bit
  ☆14Updated 4 years ago
• Wytamma / beastiary
  Real time and remote MCMC trace monitoring with BEASTIARY.
  ☆20Updated 4 months ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆32Updated last month
• CDCgov / tostadas
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
  ☆27Updated this week
• nextstrain / zika-tutorial
  Data and scripts for Zika virus tutorial
  ☆10Updated last month
• ktmeaton / ncov-recombinant
  Reproducible workflow for SARS-CoV-2 recombinant sequence detection.
  ☆18Updated last year
• vsbuffalo / hgindex
  Hierarchical binned indexed data store for on-disk genomic data.
  ☆14Updated last week
• wh-xu / Hyper-Gen
  HyGen: Compact and Efficient Genome Sketching using Hyperdimensional Vectors
  ☆24Updated 5 months ago
• broadinstitute / poasta
  Fast and exact gap-affine partial order alignment
  ☆41Updated 2 months ago
• NicolaDM / phastSim
  fast sequence evolution simulation for SARS-CoV-2 and similar
  ☆17Updated this week
• karel-brinda / Phylign
  Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)
  ☆27Updated 9 months ago
• flu-crew / smot
  Simple Manipulation Of Trees
  ☆13Updated 2 years ago
• algbio / themisto
  Space-efficient pseudoalignment with a colored de Bruijn graph
  ☆53Updated last month
• TravisWheelerLab / nail
  Nail is an Alignment Inference tooL
  ☆44Updated this week
• althonos / pysylph
  PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.
  ☆17Updated last month
• songlab-cal / swga2
  ☆14Updated last year
• rcedgar / newick
  Manipulate and generate figures for trees in Newick format
  ☆21Updated last week
• corneliusroemer / pango-sequences
  Consensus sequences for each Pango lineage
  ☆20Updated this week
• imartayan / CBL
  A Rust library providing fully dynamic sets of k-mers with high locality
  ☆44Updated 4 months ago
• chienchi / amplicon_coverage_plot
  interactive barplot for amplicon sequencing
  ☆13Updated last month
• m-crown / SPEAR
  Systematic ProtEin AnnotatoR
  ☆19Updated 3 months ago