Alternatives and similar repositories for snipit

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

• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆148Updated 3 weeks ago
• andersen-lab / ivar
  iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
  ☆121Updated this week
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆153Updated last week
• rrwick / Perfect-bacterial-genome-tutorial
  ☆137Updated last year
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆152Updated 3 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆171Updated 4 years ago
• artic-network / fieldbioinformatics
  The ARTIC field bioinformatics pipeline
  ☆125Updated last month
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆131Updated 2 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆136Updated 2 years ago
• jtlovell / GENESPACE
  ☆212Updated 5 months ago
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆96Updated 3 months ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆137Updated last year
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆115Updated last year
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆233Updated last week
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆160Updated last week
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆105Updated 3 years ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆139Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆311Updated 3 months ago
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆155Updated last week
• rrwick / Deepbinner
  a signal-level demultiplexer for Oxford Nanopore reads
  ☆126Updated 4 years ago
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆151Updated last week
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆202Updated 10 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆167Updated 3 weeks ago
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆191Updated 2 months ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆116Updated 3 weeks ago
• wdecoster / chopper
  ☆200Updated 2 months ago
• artic-network / artic-ncov2019
  ARTIC nanopore protocol for nCoV2019 novel coronavirus
  ☆170Updated 2 years ago
• connor-lab / ncov2019-artic-nf
  A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…
  ☆92Updated last year
• marbl / parsnp
  Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…
  ☆145Updated 2 months ago