Alternatives and similar repositories for phyloplace

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

• nf-core / metatdenovo
  Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
  ☆33Updated last week
• amkozlov / sativa
  Semi-Automatic Taxonomy Improvement and Validation Algorithm
  ☆19Updated last year
• epi2me-labs / wf-bacterial-genomes
  Small variant calling for haploid samples
  ☆41Updated last week
• nf-core / funcscan
  (Meta-)genome screening for functional and natural product gene sequences
  ☆92Updated last month
• ncbi / rapt
  This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.
  ☆59Updated 5 months ago
• CDCgov / mycosnp-nf
  MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates
  ☆77Updated last month
• WatsonLab / PULpy
  Open prediction of Polysaccharide Utilisation Loci (PUL)
  ☆23Updated 5 years ago
• neherlab / pangraph
  A bioinformatic toolkit to align genome assemblies into pangenome graphs
  ☆113Updated last week
• BigDataBiology / argNorm
  ARG normalization by mapping to the ARO ontology.
  ☆58Updated last month
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆99Updated 4 months ago
• beiko-lab / arete
  AMR/VF LGT focused bacterial genomics analysis workflow
  ☆27Updated 5 months ago
• WatsonLab / KOunt
  Snakemake pipeline calculating KEGG orthologue abundance in metagenomic sequence data.
  ☆24Updated 11 months ago
• nf-core / bacass
  Simple bacterial assembly and annotation pipeline
  ☆75Updated this week
• takaram / kofam_scan
  CLI tool to annotate genes with KOfam
  ☆86Updated 2 years ago
• katerinakazantseva / strainy
  Graph-based assembly phasing
  ☆88Updated 4 months ago
• epi2me-labs / wf-16s
  ☆34Updated 4 months ago
• hzi-bifo / traitar
  From genomes to phenotypes: Traitar, the microbial trait analyzer
  ☆59Updated 6 years ago
• vinuesa / get_phylomarkers
  A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…
  ☆59Updated 7 months ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆100Updated 3 years ago
• linsalrob / sphae
  Phage annotations and predictions. A spae is a prediction or foretelling. We'll foretell you what your phage is doing!
  ☆38Updated 2 months ago
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆87Updated last year
• wslh-bio / spriggan
  Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.
  ☆16Updated this week
• bacpop / ggCaller
  Bifrost graph gene caller.
  ☆96Updated 11 months ago
• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆75Updated last year
• xiaoli-dong / metaerg
  ☆41Updated 4 years ago
• gtonkinhill / panstripe
  post processing of bacterial pangenome gene presence/absence matrices
  ☆60Updated 6 months ago
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆80Updated last year
• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆102Updated 4 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• tseemann / cgmlst-dists
  🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables
  ☆29Updated last year