Scripts to download genomes from the NCBI FTP servers
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Updated
Jul 28, 2023 - Python
Scripts to download genomes from the NCBI FTP servers
simplified searching, fetching, and parsing records from NCBI using their E-utilities interface
🐣 locally query the ncbi taxonomy
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
ElasticBLAST is a cloud-based tool to perform your BLAST searches faster and make you more effective
Python script to quickly extract promoter and terminator regions with the NCBI API. Search for the presence of individual pattern or transcription factor responsive elements with manual sequence (IUPAC) or JASPAR API.
Turbocharge a PubMed literature search using citation counts and data from the NIH
Disease Clustering from Literature Based on Minimal Training Data
This program dereplicates and/or filter nucleotide and/or protein database from a list of names or sequences (by exact match).
Set of tools for viral metagenomics.
PipeTaxon exposes the ncbi taxonomy database as a REST API.
To get taxonomy ranks information with ETE3 Python3 module (http://etetoolkit.org/)
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
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