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
  ☆59Updated last year
• fmalmeida / bacannot
  Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.
  ☆103Updated 7 months ago
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆30Updated 2 years ago
• epi2me-labs / wf-16s
  ☆39Updated last month
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated 2 months ago
• jodyphelan / tbdb
  Standard database for the TBProfiler tool
  ☆31Updated 2 months 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
• shandley / hecatomb
  hecatomb is a virome analysis pipeline for analysis of Illumina sequence data
  ☆59Updated last month
• nf-core / readsimulator
  A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.
  ☆32Updated 5 months ago
• INSaFLU / INSaFLU
  INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…
  ☆38Updated last week
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 5 months ago
• bacpop / ska.rust
  Split k-mer analysis – version 2
  ☆96Updated 3 weeks ago
• nf-core / pathogensurveillance
  Surveillance of pathogens using population genomics and sequencing
  ☆43Updated 2 weeks ago
• FOI-Bioinformatics / flextaxd
  FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…
  ☆67Updated 7 months ago
• 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
• gtonkinhill / fastbaps
  A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data
  ☆67Updated 3 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆41Updated last week
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆33Updated 10 months ago
• bvalot / pyMLST
  whole genome MLST analysis
  ☆49Updated 4 months ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆29Updated 2 years ago
• smdabdoub / kraken-biom
  Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…
  ☆55Updated 3 years ago
• UPHL-BioNGS / Cecret
  Reference-based consensus creation
  ☆57Updated this week
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆77Updated last month
• SegataLab / panphlan
  PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples
  ☆46Updated 2 years ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆87Updated 6 months ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆62Updated 2 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆81Updated 3 years ago
• jhawkey / IS_mapper
  IS mapping software
  ☆57Updated 3 years ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆78Updated 2 weeks ago