Alternatives and similar repositories for kraken-protocol

Users that are interested in kraken-protocol are comparing it to the libraries listed below

• peterk87 / nf-flu
  Influenza genome analysis Nextflow workflow
  ☆31Updated 3 months ago
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆36Updated 3 years ago
• bhattlab / phanta
  Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes
  ☆67Updated 3 weeks ago
• leylabmpi / endoR
  Code and manual of the endoR R-package (Ruaud et al, in preparation).
  ☆12Updated 2 years ago
• rotheconrad / KEGGDecoder-binder
  metabolic heatmap
  ☆22Updated 6 years ago
• segrelab / MiCoNE
  The Microbial Co-occurrence Network Explorer
  ☆21Updated 2 years ago
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆60Updated 10 months ago
• wclose / viralMetagenomicsPipeline
  Pipeline for metagenomic community analysis using DNA isolated from virus-like particles
  ☆13Updated 5 years ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆87Updated 3 years ago
• donia-lab / MetaBGC
  A metagenomic strategy for harnessing the chemical repertoire of the human microbiome
  ☆33Updated last month
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated 3 months ago
• victoriapascal / gutsmash
  gutSMASH
  ☆55Updated 2 months ago
• YDaiLab / MiMeNet
  ☆18Updated 5 years ago
• kelwyres / Bactabolize
  ☆42Updated 6 months ago
• raeslab / omixer-rpm
  A Reference Pathways Mapper for turning metagenomic functional profiles into pathway/module profiles.
  ☆27Updated 7 years ago
• gamcil / clustermap.js
  ☆31Updated 4 years ago
• biobakery / shortbred
  ShortBRED is a pipeline to take a set of protein sequences, reduce them to a set of unique identifying strings ("markers"), and then sear…
  ☆31Updated 10 months ago
• iquasere / KEGGCharter
  A tool for representing genomic potential and transcriptomic expression into KEGG pathways
  ☆60Updated last year
• bhattlab / bhattlab_workflows
  Computational workflows for metagenomics tasks, by the Bhatt lab
  ☆47Updated 2 years ago
• bioforensics / pytaxonkit
  Python bindings for the TaxonKit library
  ☆41Updated 3 weeks ago
• phac-nml / gview-wiki
  The gview wiki migrated to GitHub.
  ☆11Updated 5 years ago
• pereiramemo / BiG-MEx
  BiG-MEx implementation as Docker images and R packages
  ☆13Updated 3 years ago
• citiususc / BigSeqKit
  BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale
  ☆56Updated 2 years ago
• CAMI-challenge / OPAL
  OPAL: Open-community Profiling Assessment tooL
  ☆30Updated 11 months ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• HUST-NingKang-Lab / MGM
  MGM (Microbial General Model) as a large-scaled pretrained language model for interpretable microbiome data analysis.
  ☆38Updated 8 months ago
• davidemms / SHOOT
  SHOOT.bio - the phylogenetic search engine
  ☆27Updated 2 years ago
• NBChub / bgcflow
  Snakemake workflow for the analysis of biosynthetic gene clusters across large collections of genomes (pangenomes)
  ☆51Updated last year
• 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
• moshi4 / phyTreeViz
  Simple phylogenetic tree visualization python package for phylogenetic analysis
  ☆63Updated last year