A utility to generate input files for taxonomy assignment in QIIME from the NCBI database
Switch branches/tags
Nothing to show
Clone or download
Fetching latest commit…
Cannot retrieve the latest commit at this time.
Permalink
Type Name Latest commit message Commit time
Failed to load latest commit information.
LICENSE
README.md
entrez_qiime.aux
entrez_qiime.log
entrez_qiime.out
entrez_qiime.pdf
entrez_qiime.py
entrez_qiime.tex

README.md

entrez_qiime

A utility to generate input files for taxonomy assignment in QIIME from the NCBI database

This repository contains Python code (entrez_qiime.py) required for a workflow that takes an input FASTA file generated from the NCBI database (e.g. through an Entrez/gquery search) and generates the id-to-taxonomy file needed to BLAST your metabarcode data against those sequences using the QIIME script assign_taxonomy.py. The repository includes a PDF (entrez_qiime.pdf) with guidelines for carrying out the full workflow.

DOI