Alternatives and similar repositories for rampart

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

• oschwengers / asap
  A scalable bacterial genome assembly, annotation and analysis pipeline
  ☆75Updated last year
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆142Updated last year
• connor-lab / ncov2019-artic-nf
  A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…
  ☆91Updated last year
• jts / ncov-tools
  Small collection of tools for performing quality control on coronavirus sequencing data and genomes
  ☆49Updated last year
• pirovc / ganon
  ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…
  ☆102Updated 6 months ago
• SorenKarst / longread_umi
  ☆79Updated 5 years ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 4 years ago
• fanglab / nanodisco
  nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…
  ☆70Updated 3 years ago
• bacpop / PopPUNK
  PopPUNK 👨‍🎤 (POPulation Partitioning Using Nucleotide Kmers)
  ☆100Updated 2 months ago
• DiltheyLab / MetaMaps
  Long-read metagenomic analysis
  ☆106Updated 2 years ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆116Updated last year
• ncbi / SKESA
  SKESA assembler
  ☆123Updated last year
• artic-network / primer-schemes
  Primer schemes for real-time genome epidemiology
  ☆30Updated 2 years ago
• vrmarcelino / CCMetagen
  Microbiome classification pipeline
  ☆65Updated 5 months ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆120Updated last month
• rrwick / Metagenomics-Index-Correction
  ☆84Updated 2 years 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 last month
• achtman-lab / GrapeTree
  GrapeTree is a fully interactive, tree visualization program, which supports facile manipulations of both tree layout and metadata. Click…
  ☆83Updated 10 months ago
• SionBayliss / PIRATE
  A toolbox for pangenome analysis and threshold evaluation.
  ☆101Updated 3 years ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆52Updated 11 months ago
• SamStudio8 / reticulatus
  A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads
  ☆68Updated 3 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆81Updated 3 years ago
• rrwick / Minipolish
  A tool for Racon polishing of miniasm assemblies
  ☆78Updated last month
• nanoporetech / pomoxis
  Analysis components from Oxford Nanopore Research
  ☆96Updated last year
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆113Updated 6 months ago
• mikolmogorov / Ragout
  Chromosome-level scaffolding using multiple references
  ☆162Updated last year
• transcript / samsa2
  SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…
  ☆58Updated last year
• xavierdidelot / BactDating
  Bayesian inference of ancestral dates on bacterial phylogenetic trees
  ☆92Updated 2 months ago
• nanoporetech / qcat
  qcat is a Python command-line tool for demultiplexing Oxford Nanopore reads from FASTQ files.
  ☆81Updated 4 years ago
• replikation / What_the_Phage
  WtP: Phage identification via nextflow and docker or singularity
  ☆105Updated last week