Alternatives and similar repositories for sarscov2phylo

Users that are interested in sarscov2phylo are comparing it to the libraries listed below

• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆48Updated last year
• Wytamma / GISAIDR
  Programmatically interact with the GISAID database.
  ☆78Updated last month
• lskatz / awesome-bioinformatics-education
  resources for bioinformatics education
  ☆86Updated 4 months ago
• arpcard / amr_curation
  A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curat…
  ☆61Updated 9 months ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆63Updated last year
• niemasd / TreeCluster
  Efficient phylogenetic clustering of viral sequences
  ☆89Updated last year
• artic-network / civet
  Cluster Investigation & Virus Epidemiology Tool
  ☆50Updated 3 months ago
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆56Updated 4 years ago
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• COG-UK / grapevine
  Process consensus file for COG-UK data
  ☆14Updated 4 years ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆50Updated 11 months ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆85Updated 2 years ago
• knights-lab / SHOGUN
  SHallow shOtGUN profiler
  ☆53Updated 3 years ago
• refresh-bio / kmer-db
  Kmer-db is a fast and memory-efficient tool for large-scale k-mer analyses (indexing, querying, estimating evolutionary relationships, et…
  ☆93Updated 3 months ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆77Updated last week
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated 3 months ago
• caitiecollins / treeWAS
  treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes
  ☆103Updated 7 months ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆100Updated 3 years ago
• neherlab / pan-genome-visualization
  Visualization of the pan-genome output by panX
  ☆64Updated 3 months ago
• pierrebarbera / epa-ng
  Massively parallel phylogenetic placement of genetic sequences
  ☆84Updated 3 years ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• nvelden / geneviewer
  An R package designed for drawing gene arrow maps
  ☆88Updated last month
• AstrobioMike / bit
  Bioinformatics Tools
  ☆89Updated 3 weeks ago
• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆57Updated last year
• merenlab / illumina-utils
  A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
  ☆92Updated last year
• W-L / ProblematicSites_SARS-CoV2
  ☆49Updated 3 years ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆119Updated this week
• sdellicour / seraphim
  R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., in prep.)
  ☆34Updated 2 weeks ago
• mgalardini / pyseer
  SEER, reimplemented in python 🐍🔮
  ☆124Updated 3 months ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆74Updated last year