andersen-lab / ivar

Related projects ⓘ

Alternatives and complementary repositories for ivar

• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆149Updated last week
• CSB5 / OPERA-MS
  OPERA-MS - Hybrid Metagenomic Assembler
  ☆91Updated 4 months ago
• phac-nml / mob-suite
  MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies
  ☆124Updated last month
• jtlovell / GENESPACE
  ☆191Updated 3 months ago
• artic-network / fieldbioinformatics
  The ARTIC field bioinformatics pipeline
  ☆116Updated this week
• gbouras13 / pharokka
  fast phage annotation program
  ☆148Updated this week
• rrwick / Perfect-bacterial-genome-tutorial
  ☆119Updated 5 months ago
• wdecoster / chopper
  ☆152Updated 2 months ago
• tseemann / nullarbor
  "Reads to report" for public health and clinical microbiology
  ☆136Updated 8 months ago
• chklovski / CheckM2
  Assessing the quality of metagenome-derived genome bins using machine learning
  ☆174Updated 5 months ago
• apcamargo / genomad
  geNomad: Identification of mobile genetic elements
  ☆193Updated this week
• bhattlab / MGEfinder
  A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.
  ☆110Updated last year
• LomanLab / mockcommunity
  Long-read mock community experiments
  ☆103Updated 3 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…
  ☆90Updated last year
• nigyta / dfast_core
  DDBJ Fast Annotation and Submission Tool
  ☆78Updated last month
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆201Updated 2 years ago
• qiyunlab / HGTector
  HGTector2: Genome-wide prediction of horizontal gene transfer based on distribution of sequence homology patterns.
  ☆130Updated last year
• fwhelan / coinfinder
  A tool for the identification of coincident (associating and dissociating) genes in pangenomes.
  ☆97Updated last year
• xiezhq / ISEScan
  A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome
  ☆84Updated last year
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆150Updated 5 months ago
• rrwick / Long-read-assembler-comparison
  Benchmarking of long-read assembly tools for bacterial whole genomes
  ☆170Updated 3 years ago
• gbouras13 / hybracter
  Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.
  ☆108Updated last week
• B-UMMI / chewBBACA
  BSR-Based Allele Calling Algorithm
  ☆134Updated 2 weeks ago
• sanger-pathogens / assembly-stats
  Get assembly statistics from FASTA and FASTQ files
  ☆115Updated last year
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆287Updated this week
• timkahlke / LongRead_tutorials
  Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
  ☆125Updated 2 years ago
• ncbi / fcs
  Foreign Contamination Screening caller scripts and documentation
  ☆107Updated this week
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆191Updated 2 weeks ago
• tseemann / snp-dists
  Pairwise SNP distance matrix from a FASTA sequence alignment
  ☆127Updated 8 months ago
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆109Updated last year