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
  ☆207Updated 2 months ago
• rrwick / Perfect-bacterial-genome-tutorial
  ☆152Updated last year
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆153Updated 9 months ago
• artic-network / fieldbioinformatics
  The ARTIC fieldbioinformatics pipeline
  ☆127Updated 2 weeks ago
• andersen-lab / ivar
  iVar is a computational package that contains functions broadly useful for viral amplicon-based sequencing.
  ☆131Updated last week
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆147Updated last week
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆142Updated 3 weeks ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆146Updated last week
• jtlovell / GENESPACE
  ☆228Updated 11 months ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆208Updated last year
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆164Updated 8 months ago
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆100Updated 3 weeks ago
• wdecoster / chopper
  ☆223Updated 3 weeks ago
• CSB5 / OPERA-MS
  OPERA-MS - Hybrid Metagenomic Assembler
  ☆100Updated last year
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 3 months ago
• OpenGene / fastplong
  Ultra-fast preprocessing and quality control for long-read sequencing data
  ☆212Updated 3 months ago
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆197Updated 3 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆172Updated 4 years ago
• bluenote-1577 / skani
  Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.
  ☆230Updated 2 months ago
• connor-lab / ncov2019-artic-nf
  A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), wit…
  ☆91Updated 2 years ago
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆205Updated last year
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆146Updated 2 weeks ago
• epi2me-labs / wf-metagenomics
  Metagenomic classification of long-read sequencing data
  ☆97Updated last month
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated 2 years ago
• tseemann / any2fasta
  Convert various sequence formats to FASTA
  ☆140Updated this week
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆118Updated last year
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆156Updated 5 months ago
• nf-core / taxprofiler
  Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data
  ☆174Updated last week
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated 6 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆187Updated last week