tseemann / shovillLinks
⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
☆229Updated 2 years ago
Alternatives and similar repositories for shovill
Users that are interested in shovill are comparing it to the libraries listed below
Sorting:
- A tool for generating consensus long-read assemblies for bacterial genomes☆324Updated last year
- Scan contig files against PubMLST typing schemes☆234Updated 2 years ago
- Bacterial ribosomal RNA predictor☆246Updated last year
- quality filtering tool for long reads☆343Updated last year
- Filtering and trimming of long read sequencing data☆206Updated 2 years ago
- An updated pipeline for pangenome investigation☆304Updated 3 months ago
- Pilon is an automated genome assembly improvement and variant detection tool☆367Updated 3 years ago
- Rapid comparison and dereplication of genomes☆299Updated 2 weeks ago
- A tool to circularize genome assemblies☆242Updated last year
- Pan-genome wide association studies☆197Updated last year
- customizable pipeline to identify viral sequences from (meta)genomic data☆257Updated 6 months ago
- BSR-Based Allele Calling Algorithm☆147Updated this week
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆151Updated 2 months ago
- Genome Assembly and Annotation Service code☆212Updated last year
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆202Updated 10 months ago
- Convert various sequence formats to FASTA☆136Updated 2 years ago
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆193Updated 2 months ago
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆280Updated 8 months ago
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆214Updated 2 months ago
- Synteny and Rearrangement Identifier☆390Updated last month
- "Reads to report" for public health and clinical microbiology☆140Updated last year
- Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics☆190Updated last month
- NOVOPlasty - The organelle assembler and heteroplasmy caller☆188Updated last year
- Fast and accurately polish the genome generated by long reads.☆226Updated 5 months ago
- Telomere-to-telomere assembly of accurate long reads (PacBio HiFi, Oxford Nanopore Duplex, HERRO corrected Oxford Nanopore Simplex) and O…☆347Updated 3 weeks ago
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆204Updated 2 years ago
- An overview of all nanopack tools☆257Updated 2 years ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆310Updated 3 months ago
- A user-friendly workflow for phylogenomics☆214Updated last week
- snipit: summarise snps relative to your reference sequence☆161Updated last month