Alternatives and similar repositories for baltic

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

• blab / zika-seq
  Pipelines to do MinION sequencing of Zika virus
  ☆15Updated 5 years ago
• GuyBaele / SpreadGL
  Main development repository for SpreadGL
  ☆18Updated 7 months ago
• emvolz-phylodynamics / treestructure
  ☆17Updated this week
• dhelekal / CaveDive
  ☆17Updated 11 months ago
• andersgs / harrietr
  An `R` package for various phylogenetic and evolutionary biology data manipulations
  ☆12Updated 7 years ago
• phiweger / uv
  Finding prophage regions in bacterial genomes using brute force
  ☆22Updated 2 years ago
• CDCgov / SanitizeMe
  Remove host contaminants from sequencing files
  ☆9Updated 5 years ago
• sanger-pathogens / gff3toembl
  Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
  ☆29Updated 6 years ago
• alexcritschristoph / MicrobialGenomicsScripts
  A selection of short scripts for analyzing microbial genomes
  ☆14Updated 6 years ago
• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆24Updated last year
• broadinstitute / delphy
  Fast, scalable, accurate and accessible Bayesian phylogenetics
  ☆37Updated this week
• quick-lab / SARS-CoV-2
  SARs-CoV-2 Primer schemes
  ☆15Updated this week
• ansariazim / treeBreaker
  Algorithm to divide a phylogenetic tree into segments based on phenotypes at the leaves of the tree
  ☆25Updated 6 years ago
• snake-flu / type_variants
  ☆8Updated 3 years ago
• BDI-pathogens / phyloscanner
  Phylogenetics between and within hosts at once, all along the genome.
  ☆48Updated 7 months ago
• blab / global-migration
  Analysis of global migration patterns of seasonal influenza viruses
  ☆22Updated 5 years ago
• xavierdidelot / TransPhylo
  Reconstruction of transmission trees using genomic data
  ☆62Updated last year
• yatisht / strain_phylogenetics
  Tools for analyzing and comparing SARS-CoV-2 phylogenies
  ☆9Updated 4 years ago
• CDCgov / tostadas
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission
  ☆27Updated this week
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 5 years ago
• tgvaughan / bacter
  Bacterial phylogenetics in BEAST 2.
  ☆17Updated 2 years ago
• nodrogluap / nanostripper
  Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria
  ☆14Updated 3 years ago
• CDCgov / MIRA
  ☆18Updated 3 weeks ago
• GlobalPathogenAnalysisService / read-it-and-keep
  Read contamination removal
  ☆25Updated last year
• flu-crew / TreeSort
  Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.
  ☆13Updated last month
• 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
• trvrb / phylodynamics-lecture
  Lecture on viral phylodynamics
  ☆12Updated 3 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 10 months ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆27Updated last year
• refweak / refweak
  A list of weak Bacterial assemblies in GenBank
  ☆18Updated 7 years ago