Alternatives and similar repositories for mpox

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

• PoonLab / covizu
  Rapid analysis and visualization of coronavirus genome variation
  ☆48Updated this week
• W-L / ProblematicSites_SARS-CoV2
  ☆49Updated 3 years ago
• cov-lineages / pangolin-data
  Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments
  ☆30Updated 2 months 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…
  ☆35Updated 3 years ago
• nextstrain / nextclade_data
  Datasets for https://github.com/nextstrain/nextclade
  ☆35Updated this week
• INSaFLU / INSaFLU
  INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…
  ☆35Updated 2 weeks ago
• corneliusroemer / pango-sequences
  Consensus sequences for each Pango lineage
  ☆21Updated this week
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆62Updated last year
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆55Updated 9 months ago
• wslh-bio / spriggan
  Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.
  ☆16Updated this week
• CDCgov / aquascope
  ☆20Updated 2 months ago
• epi2me-labs / wf-artic
  ARTIC SARS-CoV-2 workflow and reporting
  ☆51Updated last month
• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆48Updated last year
• CDCgov / seqsender
  Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
  ☆38Updated last month
• CDCgov / tostadas
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
  ☆27Updated this week
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆28Updated last year
• CDCgov / phoenix
  🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
  ☆74Updated this week
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆29Updated 2 months ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated last year
• neherlab / treetime_examples
  A collection of documented examples using TreeTime
  ☆21Updated 5 years ago
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆38Updated last month
• nextstrain / avian-flu
  Nextstrain build for avian influenza viruses
  ☆25Updated this week
• oschwengers / referenceseeker
  Rapid determination of appropriate reference genomes.
  ☆97Updated 4 months ago
• evolbioinfo / pastml
  Ancestral character reconstruction and visualisation for rooted phylogenetic trees
  ☆33Updated last week
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 3 weeks ago
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆57Updated 2 months ago
• grubaughlab / DENV_pipeline
  ☆16Updated 2 months ago
• USDA-VS / GenoFLU
  Influenza data pipeline to automate genotyping assignment
  ☆33Updated this week
• cbg-ethz / cojac
  ☆19Updated 3 weeks ago
• baymlab / wastewater_analysis
  Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification
  ☆16Updated last year