Alternatives and similar repositories for ncov-ingest

Users that are interested in ncov-ingest are comparing it to the libraries listed below

• roblanf / sarscov2phylo
  Global phylogenies of SARS-CoV-2 sequences
  ☆85Updated 2 years ago
• nextstrain / zika-tutorial
  Data and scripts for Zika virus tutorial
  ☆10Updated 2 months ago
• onecodex / sars-cov-2
  SARS-CoV-2 variant calling and consensus assembly pipeline
  ☆26Updated 2 years ago
• nextstrain / mpox
  Nextstrain build for mpox virus
  ☆50Updated this week
• ukhsa-collaboration / variant_definitions
  ☆74Updated last year
• PoonLab / covizu
  Rapid analysis and visualization of coronavirus genome variation
  ☆48Updated last month
• cov-lineages / scorpio
  serious constellations of reoccurring phylogenetically-independent origin
  ☆39Updated 2 years ago
• SamStudio8 / majora2
  Malleable All-seeing Journal Of Research Artifacts
  ☆35Updated 2 years ago
• cov-lineages / llama
  Local Lineage and Monophyly Assessment
  ☆16Updated 4 years ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆71Updated 2 years ago
• maximilianh / multiSub
  Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…
  ☆36Updated 3 years ago
• abschneider / StrainHub
  Welcome to the StrainHub Repo - Files and Data - StrainHub Online:
  ☆17Updated 3 years ago
• theosanderson / taxonium
  A tool for exploring large trees in the browser
  ☆119Updated 3 weeks ago
• neherlab / pan-genome-visualization
  Visualization of the pan-genome output by panX
  ☆65Updated 6 months ago
• mikemc / metacal
  Metagenomics calibration R package
  ☆20Updated 3 years ago
• serratus-bio / tantalus
  R Data Exploration for Serratus
  ☆15Updated 2 years ago
• ncbi / magicblast
  ☆36Updated 8 months ago
• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆27Updated 4 months ago
• biocore / qurro
  Visualize differentially ranked features (taxa, metabolites, ...) and their log-ratios across samples
  ☆34Updated 9 months ago
• fmalmeida / ngs-preprocess
  A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
  ☆35Updated last year
• BIMSBbioinfo / pigx_sars-cov-2
  PiGx SARS-CoV-2 wastewater sequencing pipeline
  ☆18Updated 2 years ago
• phylogeography / SPREADv1
  Spatial Phylogenetic Reconstruction of Evolutionary Dynamics
  ☆20Updated 6 years ago
• trvrb / phylodynamics-lecture
  Lecture on viral phylodynamics
  ☆12Updated 4 years ago
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 6 months ago
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated 2 months ago
• snakemake / snakemake-workflow-catalog
  A statically generated catalog of available Snakemake workflows
  ☆36Updated this week
• NCBI-Hackathons / MetagenomicAntibioticResistance
  NastyBugs: a simple method for extracting antimicrobial resistance information from metagenomes
  ☆22Updated 7 years ago
• ncbi / docker
  ☆53Updated last month
• W-L / ProblematicSites_SARS-CoV2
  ☆50Updated 3 years ago
• mpxv-lineages / lineage-designation
  Official place for proposals and details around monkeypox virus lineage designations
  ☆23Updated last month