tseemann / shovillLinks
⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads
☆249Updated last month
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☆339Updated 4 months ago
- Bacterial ribosomal RNA predictor☆272Updated last week
- Scan contig files against PubMLST typing schemes☆261Updated 2 weeks ago
- An updated pipeline for pangenome investigation☆335Updated this week
- CAT/BAT/RAT: tools for taxonomic classification of contigs and metagenome-assembled genomes (MAGs) and for taxonomic profiling of metage…☆223Updated 3 months ago
- BSR-Based Allele Calling Algorithm☆148Updated last week
- Pan-genome wide association studies☆205Updated last year
- A tool to circularize genome assemblies☆250Updated last year
- Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins☆209Updated 4 months ago
- Classifier for metagenomic sequences☆269Updated 7 months ago
- Filtering and trimming of long read sequencing data☆212Updated 3 years ago
- quality filtering tool for long reads☆381Updated 4 months ago
- Finds SNP sites from a multi-FASTA alignment file☆272Updated 5 years ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆163Updated 9 months ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆208Updated last year
- Build a partitioned pangenome graph from microbial genomes☆291Updated last month
- ☆270Updated 6 months ago
- NOVOPlasty - The organelle assembler and heteroplasmy caller☆195Updated last year
- k-mer based assembly evaluation☆335Updated last year
- Tool to plot synteny and structural rearrangements between genomes☆337Updated 9 months ago
- Short Read Sequence Typing for Bacterial Pathogens☆145Updated 4 years ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆279Updated last year
- snipit: summarise snps relative to your reference sequence☆166Updated last week
- A user-friendly workflow for phylogenomics☆225Updated last month
- Pilon is an automated genome assembly improvement and variant detection tool☆374Updated 3 years ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆363Updated 5 months ago
- Rapid comparison and dereplication of genomes☆326Updated 2 months ago
- ☆227Updated last month
- pycoQC computes metrics and generates Interactive QC plots from the sequencing summary report generated by Oxford Nanopore technologies b…☆284Updated last year
- Convert various sequence formats to FASTA☆145Updated 3 weeks ago