🖼️ Convert images of tables or charts into downloadable CSV files effortlessly with the CSV Everything Chrome Extension using the OpenRouter API.

TSV and XLSX templates for submitting ENA objects (study, experiment, sample and run) using the ENA-upload-tool

Tracks downstream reuse of plant DNA sequences across scientific literature and patents — a DSI traceability tool built on ENA, NCBI, and EuropePMC APIs.

Python CLI for querying and downloading RNA-Seq metadata from the EMBL-EBI ENA Portal by NCBI taxonomy ID.

Command-line tool for fast, automated downloading of raw FASTQ files from ENA and/or GEO, supporting variety of NGS datasets, including bulk and single-cell RNA-seq.

Pipeline to fetch metadata and raw FastQ files from public databases

FAIRy rulepacks for ENA/SRA: validate submission metadata + read/QC manifests early, with actionable “how to fix” guidance.

Package for fetching metadata and downloading data from SRA/ENA/GEO

OMD Curation Toolkit is a python package designed for the download and curation of metadata and fastq files of public omics datasets.

Bash script for downloading ENA FASTQs from a CSV/TSV mapping of strain IDs to ERR accessions.

An efficient way to convert gff3 annotation files into EMBL format ready to submit.

R functions and workflow for submitting amplicon sequence data to the ENA.

Dresser-un-fonctionnaire.com

Mirror selected ENA data locally

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.

Collecting Genotypes from ENA and make their SNPs

A Python library for interacting with ENA's API

Snakemake workflow to upload Sars-Cov-2 reads to ENA