Alternatives and similar repositories for PlasFlow

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

• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆144Updated 3 months ago
• thanhleviet / ISfinder-sequences
  Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…
  ☆70Updated 5 years ago
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆99Updated 7 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
• patrickwest / EukRep
  Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets
  ☆75Updated last year
• rrwick / Autocycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆199Updated 3 weeks ago
• cmks / DAS_Tool
  DAS Tool
  ☆162Updated last year
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆83Updated 2 months ago
• donovan-h-parks / CompareM
  A toolbox for comparative genomics.
  ☆106Updated 4 years ago
• gem-pasteur / Integron_Finder
  Bioinformatics tool to find integrons in bacterial genomes
  ☆82Updated 6 months ago
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆138Updated 2 years ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆150Updated 8 months 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…
  ☆146Updated last month
• xavierdidelot / ClonalFrameML
  ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes
  ☆116Updated last year
• KatariinaParnanen / MobileGeneticElementDatabase
  Contains a fasta format database of a large variety of mobile genetic elements and an annotation file
  ☆51Updated 4 years ago
• gbouras13 / dnaapler
  Reorients assembled microbial sequences
  ☆129Updated 3 months ago
• eead-csic-compbio / get_homologues
  GET_HOMOLOGUES: a versatile software package for pan-genome analysis
  ☆121Updated 3 weeks ago
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆104Updated 4 years ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆141Updated last year
• MDU-PHL / abritamr
  A pipeline for running AMRfinderPlus and collating results into functional classes
  ☆87Updated last week
• biofuture / Ublastx_stageone
  This is the source code for multisamples ARGs profiling using SARG2.0 database
  ☆46Updated 4 years ago
• Hydro3639 / NanoPhase
  Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …
  ☆32Updated 2 years ago
• rrwick / Perfect-bacterial-genome-tutorial
  ☆149Updated last year
• avierstr / amplicon_sorter
  Sorts amplicons from Nanopore sequencing data based on similarity
  ☆40Updated last month
• BinPro / CONCOCT
  Clustering cONtigs with COverage and ComposiTion
  ☆135Updated 5 years ago
• songweizhi / MetaCHIP
  Horizontal gene transfer (HGT) identification pipeline
  ☆63Updated 2 years ago
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆148Updated last week
• CSB5 / OPERA-MS
  OPERA-MS - Hybrid Metagenomic Assembler
  ☆100Updated last year
• HRGV / phyloFlash
  phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.
  ☆88Updated 2 years ago