Alternatives and similar repositories for snp-sites:

Users that are interested in snp-sites are comparing it to the libraries listed below

• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆314Updated 8 months ago
• rrwick / Filtlong
  quality filtering tool for long reads
  ☆310Updated last year
• edgardomortiz / vcf2phylip
  Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis
  ☆303Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆294Updated 2 months ago
• Dfam-consortium / RepeatMasker
  RepeatMasker is a program that screens DNA sequences for interspersed repeats and low complexity DNA sequences.
  ☆240Updated 2 months ago
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆235Updated 9 months ago
• wdecoster / nanopack
  An overview of all nanopack tools
  ☆230Updated last year
• Dfam-consortium / RepeatModeler
  De-Novo Repeat Discovery Tool
  ☆200Updated 3 weeks ago
• BioInfoTools / BBMap
  (Not Offical) BBMap short read aligner, and other bioinformatic tools.
  ☆215Updated 3 years ago
• jenniferlu717 / Bracken
  Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…
  ☆299Updated 6 months ago
• nf-core / mag
  Assembly and binning of metagenomes
  ☆226Updated this week
• malonge / RagTag
  Tools for fast and flexible genome assembly scaffolding and improvement
  ☆486Updated 11 months ago
• a-slide / pycoQC
  pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…
  ☆273Updated 3 months ago
• PacificBiosciences / pbbioconda
  PacBio Secondary Analysis Tools on Bioconda. Contains list of PacBio packages available via conda.
  ☆259Updated 7 months ago
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆274Updated last month
• schneebergerlab / syri
  Synteny and Rearrangement Identifier
  ☆357Updated last month
• broadinstitute / pilon
  Pilon is an automated genome assembly improvement and variant detection tool
  ☆345Updated 2 years ago
• wdecoster / nanofilt
  Filtering and trimming of long read sequencing data
  ☆197Updated 2 years ago
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆210Updated 2 years ago
• NBISweden / GAAS
  Genome Assembly and Annotation Service code
  ☆206Updated last year
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆196Updated 5 months ago
• jenniferlu717 / KrakenTools
  KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files
  ☆326Updated last year
• Nextomics / NextPolish
  Fast and accurately polish the genome generated by long reads.
  ☆217Updated 3 weeks ago
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆232Updated last year
• Gaius-Augustus / BRAKER
  BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…
  ☆374Updated last week
• jtlovell / GENESPACE
  ☆197Updated this week
• sanger-pathogens / Roary
  Rapid large-scale prokaryote pan genome analysis
  ☆329Updated 2 years ago
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆133Updated 3 years ago
• wyp1125 / MCScanX
  MCScanX: Multiple Collinearity Scan toolkit X version. The most popular synteny analysis tool in the world!
  ☆247Updated last month
• MGXlab / CAT_pack
  CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…
  ☆201Updated last month