Alternatives and similar repositories for phoenix

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

• pha4ge / pipeline-resources
  Bioinformatics Pipeline and Visualization resources
  ☆60Updated last year
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆80Updated last month
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated 2 weeks ago
• FOI-Bioinformatics / flextaxd
  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…
  ☆68Updated 9 months ago
• epi2me-labs / wf-16s
  ☆41Updated last month
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆30Updated 2 years ago
• theiagen / public_health_viral_genomics
  Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…
  ☆41Updated last year
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• bhattlab / kraken2_classification
  Snakemake workflow for metagenomic classification with Kraken2
  ☆66Updated 2 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 2 months ago
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆97Updated 3 months ago
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆31Updated 4 months ago
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆32Updated 7 months ago
• ngs-fzb / MTBseq_source
  MTBseq is an automated pipeline for mapping, variant calling and detection of resistance mediating and phylogenetic variants from illumin…
  ☆46Updated 3 months ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆90Updated last month
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆81Updated 3 years ago
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years ago
• INSaFLU / INSaFLU
  INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…
  ☆40Updated 2 weeks ago
• CFSAN-Biostatistics / C-WAP
  SC2 variant detection and composition pipeline
  ☆17Updated 2 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆78Updated 3 months ago
• fmalmeida / bacannot
  Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
  ☆104Updated last month
• GenomicsAotearoa / metagenomics_summer_school
  Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber
  ☆66Updated last year
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆62Updated 5 months ago
• nf-core / pathogensurveillance
  Surveillance of pathogens using population genomics and sequencing
  ☆52Updated last month
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 7 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆50Updated 6 months ago
• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆57Updated last week
• voorloopnul / awesome-phages
  A curated list of phage related software and computational resources for phage scientists, bioinformaticians and enthusiasts.
  ☆50Updated 3 years ago
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆68Updated 3 years ago