pirovc / genome_updaterLinks
genome_updater is a bash script that downloads and updates (non-redundant) snapshots of the NCBI Genomes repository (RefSeq/GenBank) with advanced filters, detailed logs and reports, file integrity checks, NCBI taxonomy and GTDB integration and support for parallel downloads.
☆162Updated last month
Alternatives and similar repositories for genome_updater
Users that are interested in genome_updater are comparing it to the libraries listed below
Sorting:
- Download files from NCBI Entrez by accession☆132Updated last year
- ☆133Updated last year
- FunGAP: fungal Genome Annotation Pipeline☆111Updated 6 months ago
- snipit: summarise snps relative to your reference sequence☆164Updated 3 months ago
- Find clustered hits from a BLAST search☆128Updated last month
- Catalog of genomic indexes freely available from public clouds☆65Updated last month
- Processing pipeline for pan-genome visulization and exploration☆142Updated 2 years ago
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆201Updated 4 months ago
- 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…☆148Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆230Updated 2 months ago
- A robust, extensible metagenomics pipeline☆174Updated last week
- LexicMap: efficient sequence alignment against millions of prokaryotic genomes☆204Updated last week
- a tool for inferring species tree from sequencing reads☆156Updated 2 weeks ago
- Pipeline for metabolic annotation of microbial genomes☆150Updated 9 months ago
- WtP: Phage identification via nextflow and docker or singularity☆104Updated 3 weeks ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆145Updated last week
- List of genome assembly tools☆88Updated 3 weeks ago
- ☆134Updated 2 weeks ago
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆159Updated 6 months ago
- Convert various sequence formats to FASTA☆140Updated last week
- Bioinformatics tool for Locus Visualisation☆151Updated 2 months ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆268Updated 2 months ago
- Randomly subsample sequencing reads or alignments☆249Updated 2 weeks ago
- Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.☆158Updated last month
- Supporting code for uncultivated gut virus manuscript☆77Updated 2 years ago
- GenoVi, an automated customizable circular genome visualizer for bacteria and archaea☆100Updated 2 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆122Updated last week
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomes☆118Updated last year
- Bioinformatics Tools☆90Updated last month
- Metagenomic classification of long-read sequencing data☆97Updated last month