Alternatives and similar repositories for FitnessInference

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

• neherlab / treetime_examples
  A collection of documented examples using TreeTime
  ☆21Updated 5 years ago
• chrisruis / MutTui
  MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets
  ☆29Updated 11 months ago
• emvolz / treedater
  Scalable relaxed clock phylogenetic dating
  ☆25Updated last year
• COG-UK / grapevine
  Process consensus file for COG-UK data
  ☆14Updated 3 years ago
• sgearle / bugwas
  Locus and lineage tests for bacterial GWAS
  ☆29Updated 7 years ago
• rega-cev / virulign
  VIRULIGN: fast codon-correct alignment and annotation of viral genomes
  ☆35Updated 4 years ago
• tothuhien / lsd-0.3beta
  ☆12Updated 6 years ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• dhelekal / CaveDive
  ☆17Updated 11 months ago
• lauringlab / variant_pipeline
  Work on the variant_pipeline and initial r analysis used in calling variants from NGS data
  ☆9Updated 6 years ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆28Updated last year
• alvinxhan / Phydelity
  Inference of putative transmission phylogenetic clusters
  ☆11Updated 4 years ago
• GuyBaele / SpreadGL
  Main development repository for SpreadGL
  ☆18Updated 8 months ago
• jessiewu / bacterialGWAS
  A pipeline for performing genome-wide association tests for bacterial genomes.
  ☆27Updated 7 years ago
• theiagen / public_health_bacterial_genomics
  ☆26Updated last year
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆28Updated 4 months ago
• CFIA-NCFAD / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆22Updated 2 months ago
• emvolz-phylodynamics / treestructure
  ☆17Updated this week
• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆26Updated last month
• jonas-fuchs / SARS-CoV-2-analyses
  Collection of R scripts for SARS-CoV-2 (variant) analyses
  ☆12Updated 2 years ago
• gtonkinhill / pairsnp
  A set of scripts for calculating pairwise SNP distance
  ☆40Updated 2 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆46Updated 5 months ago
• duchene / phylomad
  ☆19Updated 11 months ago
• sanger-pathogens / mlst_check
  Multilocus sequence typing by blast using the schemes from PubMLST
  ☆30Updated 2 years ago
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆30Updated 2 years ago
• pauloluniyi / VGEA
  VGEA (Viral Genomes Easily Analyzed) is a pipeline for analysis of RNA virus next-generation sequencing data.
  ☆20Updated 3 years ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• fmalmeida / ngs-preprocess
  A pipeline for preprocessing NGS data from Illumina, Nanopore and PacBio technologies
  ☆34Updated 11 months ago
• theiagen / public_health_viral_genomics
  Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…
  ☆41Updated 10 months ago
• sjspielman / phyphy
  Python HyPhy: Facilitating HyPhy execution and parsing
  ☆21Updated 3 years ago