laxeye / zga
ZGA prokaryotic genome assembly and annotation pipeline
☆11Updated 2 months ago
Related projects ⓘ
Alternatives and complementary repositories for zga
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆23Updated last year
- Calculate assocations between genes and traits☆19Updated 3 weeks ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 5 years ago
- transposable element typing pipeline☆16Updated 8 months ago
- Automatic evaluation of HGTs☆25Updated 2 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆24Updated 2 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆19Updated 5 years ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 6 years ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 7 months ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆15Updated 4 years ago
- Dinoflagellate Annotation Workflow☆12Updated 2 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆40Updated 3 weeks ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆22Updated last month
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated last year
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆25Updated last week
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆37Updated this week
- Download NCBI assembly genomes with ftp. rsync, ascp☆11Updated 2 years ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆15Updated 4 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆23Updated 6 years ago
- MAGScoT - a MAG scoring and refinement tool☆28Updated last month
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆28Updated 2 months ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆18Updated 2 years ago
- A high performance tool to identify orthologs and paralogs across genomes.☆27Updated last year
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 4 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆41Updated 4 months ago