Alternatives and similar repositories for ont-assembly-snake

Users that are interested in ont-assembly-snake are comparing it to the libraries listed below

• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆49Updated 3 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆44Updated 4 years ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆59Updated 2 months ago
• MicrobialDarkMatter / nanomotif
  Nanomotif - a tool for identifying methylated motifs in metagenomic samples
  ☆26Updated last week
• bvalot / pyMLST
  whole genome MLST analysis
  ☆42Updated last month
• Ivarz / Conifer
  Calculate confidence scores from Kraken2 output
  ☆22Updated last year
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆40Updated 3 weeks ago
• rvicedomini / strainberry
  Automated strain separation of low-complexity metagenomes
  ☆51Updated 3 years ago
• Serka-M / mmlong2-lite
  Lightweight bioinformatics pipeline for microbial genome recovery
  ☆10Updated 2 months ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆35Updated 4 years ago
• rrwick / Verticall
  Recombination-free trees
  ☆58Updated last month
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆27Updated 5 months ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆53Updated 2 years ago
• bonsai-team / Porechop_ABI
  Adapter trimmer for Oxford Nanopore reads using ab initio method
  ☆40Updated 5 months ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆34Updated last year
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆55Updated last month
• LomanLab / EBAME18
  Long read metagenomics practical at EBAME18
  ☆18Updated 6 years ago
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆26Updated last year
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆64Updated 2 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆34Updated 5 months ago
• brinkmanlab / islandpath
  IslandPath standalone software
  ☆32Updated last year
• gbouras13 / plassembler
  Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates
  ☆62Updated 4 months ago
• mjsull / chromatiblock
  Colinear block visualisation tool
  ☆31Updated last year
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆35Updated 3 weeks ago
• phac-nml / sistr_cmd
  SISTR (Salmonella In Silico Typing Resource) command-line tool
  ☆27Updated 3 weeks ago
• leylabmpi / Struo
  Ley Lab MetaGenome Profiler DataBase generator
  ☆49Updated 2 years ago
• marbl / harvest
  ☆52Updated 4 years ago
• tseemann / phastaf
  Identify phage regions in bacterial genomes for masking purposes
  ☆30Updated 5 years ago