Scripts to download genomes from the NCBI FTP servers
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Updated
Aug 6, 2024 - Python
Scripts to download genomes from the NCBI FTP servers
👁️ Python library to plot DNA sequence features (e.g. from Genbank files)
A genome visualization python package for comparative genomics
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
Nextstrain build for mpox virus
Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input directory and merges everything into a single output directory. Auto-detects input file formats. Can submit the results to multiple repositories from the command line.
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
a toolbox for utilize organelle genomic data
Easy-to-use web application for visualization and comparison of genomes in Genbank file
👓 Python library to parse Snapgene *.dna files to dict or biopython seqrecord.
A Python package for Biopython that gives feature annotations from GenBank records a new and better life
Web scraper to retrieve protein data catalogued by the CAZy, UniProt, NCBI, GTDB and PDB websites/databases.
MetaShot (Metagenomics Shotgun) is a complete pipeline designed for the taxonomic classification of the human microbiota members. In MetaShot, third party tools and new developed Python and Bash scripts are integrated to analyze paired-end (PE) Illumina sequences, offering an automated procedure covering all the analysis steps from raw data mana…
LAVA: Longitudinal Analysis of Viral Alleles
GenBank Record downloader for taxonomists
Tools to download, parse and filter GenBank files
a tool for automatic construction of molecular data matrix for phylogenetic inference based on GenBank records
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