Alternatives and similar repositories for snipit

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

• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆203Updated last month
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆147Updated last month
• artic-network / fieldbioinformatics
  The ARTIC fieldbioinformatics pipeline
  ☆127Updated last month
• rrwick / Perfect-bacterial-genome-tutorial
  ☆150Updated last year
• andersen-lab / ivar
  iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
  ☆130Updated last week
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆145Updated 3 months ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆151Updated 8 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• jtlovell / GENESPACE
  ☆222Updated 10 months ago
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆200Updated 3 months ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆142Updated 2 years ago
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 3 months ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆140Updated this week
• wdecoster / chopper
  ☆220Updated this week
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆100Updated 8 months ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆162Updated 7 months ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated 2 years ago
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆265Updated last month
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated 6 months ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆145Updated this week
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆208Updated last year
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆196Updated 2 months ago
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆205Updated last year
• CSB5 / OPERA-MS
  OPERA-MS - Hybrid Metagenomic Assembler
  ☆100Updated last year
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆117Updated last year
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆172Updated 4 years ago
• 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…
  ☆148Updated 2 months ago
• bluenote-1577 / skani
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆229Updated last month
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆153Updated 5 months ago
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆104Updated 4 years ago