Alternatives and similar repositories for Scoary:

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

• gtonkinhill / panaroo
  An updated pipeline for pangenome investigation
  ☆296Updated 2 months ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆203Updated 2 years ago
• tseemann / shovill
  ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
  ☆222Updated 2 years ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆114Updated 2 months ago
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆242Updated last year
• klebgenomics / Kleborate
  ☆125Updated 2 months ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆81Updated 3 weeks ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆201Updated 8 months ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆144Updated 2 weeks ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆320Updated 11 months ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆138Updated last year
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆211Updated last week
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆188Updated 2 months ago
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆144Updated this week
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆117Updated last year
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆135Updated 2 years ago
• MaestSi / MetONTIIME
  A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework
  ☆99Updated last month
• nmquijada / tormes
  Making whole bacterial genome sequencing data analysis easy
  ☆106Updated 2 weeks ago
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆212Updated 2 weeks ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆139Updated last year
• wdecoster / chopper
  ☆185Updated last week
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆135Updated last year
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆223Updated 2 years ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆241Updated last year
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆142Updated 2 weeks ago
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆158Updated 3 months ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆126Updated last month
• cmks / DAS_Tool
  DAS Tool
  ☆147Updated last year
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆222Updated 3 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆161Updated 3 months ago