Alternatives and similar repositories for Bacterial-genome-assemblies-with-multiplex-MinION-sequencing

Users that are interested in Bacterial-genome-assemblies-with-multiplex-MinION-sequencing are comparing it to the libraries listed below

• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆57Updated 5 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• simonrharris / SKA
  Split Kmer Analysis
  ☆67Updated 3 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆43Updated 5 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• Shamir-Lab / Recycler
  This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…
  ☆58Updated 4 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• tseemann / seeka
  Get microbial sequence data easier and faster
  ☆28Updated 6 years ago
• GATB / gatb-minia-pipeline
  GATB Minia assembly pipeline
  ☆31Updated 2 years ago
• drpowell / FriPan
  Interactive, web tool for exploring pan-genome of bacterial strains
  ☆48Updated 2 weeks ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆78Updated 4 months ago
• mdcao / npScarf
  ☆26Updated 6 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆77Updated 9 years ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated this week
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• lbcb-sci / ra
  Assembler for raw de novo genome assembly of long uncorrected reads.
  ☆36Updated 6 years ago
• snacktavish / TreeToReads
  Pipeline to generate NGS reads from a phylogeny
  ☆39Updated 3 years ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• marbl / harvest
  ☆53Updated 4 years ago
• CFSAN-Biostatistics / snp-pipeline
  SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…
  ☆65Updated 2 years ago
• combogenomics / medusa
  A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.
  ☆45Updated 4 years ago
• bioinf / Sibelia
  Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.
  ☆70Updated 5 years ago
• bioinfo-ut / PlasmidSeeker
  A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
  ☆36Updated 4 years ago
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆61Updated 2 years ago
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 6 months ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆71Updated 5 years ago
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆41Updated 2 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆36Updated last year