Alternatives and similar repositories for TreeToReads

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

• simonrharris / SKA
  Split Kmer Analysis
  ☆66Updated 3 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆77Updated 9 years ago
• will-rowe / groot
  A resistome profiler for Graphing Resistance Out Of meTagenomes
  ☆65Updated 5 years ago
• sanger-pathogens / assembly_improvement
  Improve the quality of a denovo assembly by scaffolding and gap filling
  ☆57Updated 4 years ago
• mw55309 / ideel
  Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes
  ☆54Updated 2 years ago
• jordanlab / stringMLST
  Fast k-mer based tool for multi locus sequence typing (MLST)
  ☆45Updated 5 years ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆71Updated 5 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
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated 4 months ago
• bioinf / Sibelia
  Genome comparison via de Bruijn graph. To get the latest stable version, please visit our site.
  ☆70Updated 5 years ago
• katholt / RedDog
  ☆37Updated 3 years ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆43Updated 5 years ago
• combogenomics / medusa
  A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.
  ☆45Updated 4 years ago
• rrwick / Rebaler
  reference-based long read assemblies of bacterial genomes
  ☆51Updated 4 years ago
• rrwick / Bacsort
  a collection of scripts for organising bacterial genomes by species
  ☆81Updated 3 years ago
• rrwick / Assembly-Dereplicator
  A tool for removing redundant genomes from a set of assemblies
  ☆77Updated 3 months ago
• SamStudio8 / dehumanizer
  rapidly rid reads of horrid humans
  ☆15Updated 4 years ago
• JosephCrispell / homoplasyFinder
  A tool to identify and annotate homoplasies on a phylogeny and sequence alignment
  ☆21Updated 4 years ago
• naturalis / wgs2ncbi
  Toolkit for preparing genomes for submission to NCBI
  ☆29Updated 4 years ago
• jts / assembly_accuracy
  tools for assessing the accuracy of genome assemblies
  ☆35Updated last year
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆34Updated last year
• WatsonLab / MAGpy
  Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)
  ☆61Updated 2 years ago
• KamilSJaron / k-mer-approaches-for-biodiversity-genomics
  k-mer learning materials
  ☆81Updated 10 months ago
• bhattlab / lathe
  A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing
  ☆69Updated 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
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• marbl / harvest
  ☆53Updated 4 years ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆47Updated 2 months ago
• blaxterlab / blobology
  Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …
  ☆47Updated 3 years ago
• rrwick / Verticall
  Recombination-free trees
  ☆64Updated 3 months ago