NCBI Genome downloader

IsoAligner: dynamic mapping of amino acid positions across protein isoforms

⬇️ Facilitates downloading NCBI's RefSeq with a human-readable file structure

🇨🇭🦠 Service for pathogens and threats identification in hospital environments - SOPHiA Genetics

Curated mirror of RefSeq Microbial Genomes. Available via CVMFS repository.

Get the latest gene-transcript identifiers using Ensembl, RefSeq, MANE and LRGs models.

Pipeline for the selection of canonical proteins for reference proteomes

Mapping RefSeq RNA to OrthoDB (Under Development)

Downloading Genomes from RefSeq

Randomly download genomes from NCBI RefSeq and Genbank

F# library for accessing and manipulating bioinformatic datasets.

🦇🧫📊Supplementary materials for study on bat gut shotgun metagenomics

IsoAligner: dynamic mapping of amino acid positions across protein isoforms

Fast and space-efficient taxonomic classification of long reads

Download biological databas, extract database identifier and entrez gene identifier, insert in a mongo database

fast classification of metagenomic sequences with lightweight de Bruijin graph-based reference indexing

Rapid determination of appropriate reference genomes.

memory efficient, fast & precise taxnomomic classification system for metagenomic read mapping

ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refseq/genbank), taxonomic profiling (ncbi/gtdb), binning and hierarchical classification, customized reporting and more

Bash script to download/update snapshots of files from NCBI genomes repository (refseq/genbank) with track of changes and without redundancy