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

• UpdatedFeb 17, 2025
• Python

A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA

• UpdatedMar 30, 2020
• Python

Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.

• UpdatedJun 4, 2021
• Python

A homology-based, computationally lightweight pipeline for discovering genes in the absence of an assembly

• UpdatedApr 2, 2021
• Python

Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories

• UpdatedMar 5, 2025
• Python

Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA

• UpdatedFeb 29, 2024
• HTML

Extract metadata from biosamples in NCBI

• UpdatedApr 12, 2021
• Python

ARA.v1.6.0

• UpdatedJun 9, 2024
• Perl

A tool to prepare files and run/monitor programmatic submissions to NCBI

• UpdatedMar 5, 2024
• Python

fast utils for fetch and dump NCBI SRA archive raw data

• UpdatedMay 25, 2023
• Python

This Python script retrieve all children organism under an ancestor in NCBI taxonomy.

• UpdatedFeb 19, 2025
• Python

Pulls Metadata from NCBI based on Sample name or SRR #

• UpdatedApr 27, 2021
• PowerShell

Data and code used in the Plant Genomes dashboard

• UpdatedMar 13, 2022
• R

frequency of high level ranks in sequence databases

• UpdatedMar 3, 2025
• Python

The Docker integration for the r2g project.

• UpdatedAug 10, 2020
• Dockerfile

A command-line tool for retrieving annotations from the NCBI SRA.

• UpdatedNov 19, 2024
• Python

explore sra databases and sequence retrieval

• UpdatedAug 17, 2024
• Shell