Alternatives and similar repositories for fcs

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

• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆135Updated 2 months ago
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆160Updated this week
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆136Updated last year
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆96Updated 4 months ago
• genomehubs / blobtoolkit
  Interactive quality assessment of genome assemblies
  ☆104Updated 3 months ago
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆81Updated 3 months ago
• CSB5 / OPERA-MS
  OPERA-MS - Hybrid Metagenomic Assembler
  ☆95Updated last year
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆38Updated 2 months ago
• rrwick / Polypolish
  a short-read polishing tool for long-read assemblies
  ☆173Updated 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 3 months ago
• thanhleviet / ISfinder-sequences
  Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…
  ☆68Updated 4 years ago
• GaetanBenoitDev / metaMDBG
  MetaMDBG: a lightweight assembler for long and accurate metagenomics reads.
  ☆168Updated this week
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆104Updated 4 years ago
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆115Updated last year
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆106Updated 3 years ago
• mjsull / Easyfig
  Development version of Easyfig
  ☆99Updated last year
• medvedevgroup / SibeliaZ
  A fast whole-genome aligner based on de Bruijn graphs
  ☆151Updated last month
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆124Updated 4 months ago
• RemiAllio / MitoFinder
  MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
  ☆108Updated last year
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆79Updated 11 months ago
• linzhi2013 / MitoZ
  MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
  ☆126Updated 9 months ago
• ncbi / SKESA
  SKESA assembler
  ☆121Updated 9 months ago
• sanger-pathogens / assembly-stats
  Get assembly statistics from FASTA and FASTQ files
  ☆121Updated 2 years ago
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆124Updated last year
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆153Updated 3 months ago
• xiaochuanle / NECAT
  Nanopore data assembler
  ☆158Updated 3 years ago
• patrickwest / EukRep
  Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
  ☆73Updated last year
• tbenavi1 / genomescope2.0
  Reference-free profiling of polyploid genomes
  ☆120Updated last month
• artic-network / fieldbioinformatics
  The ARTIC field bioinformatics pipeline
  ☆125Updated 3 weeks ago
• rrwick / Perfect-bacterial-genome-tutorial
  ☆140Updated last year