Package for fetching metadata and downloading data from SRA/ENA/GEO
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Aug 16, 2026 - Python
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ncbi-sra
Here are 21 public repositories matching this topic...
A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA
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Aug 18, 2025 - Python
Reproducible bioinformatics pipelines in python. Import any Unix tool/command in python.
python bioinformatics rna-seq conda bioinformatics-pipeline bioconda bioinformatics-analysis rna-seq-pipeline ncbi-sra rna-seq-workflows
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Jun 4, 2021 - Python
A homology-based, computationally lightweight pipeline for discovering genes in the absence of an assembly
bioinformatics bioinformatics-pipeline phylogenetics orthology homology ncbi-sra gene-sequence-retrieval
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Apr 2, 2021 - Python
Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories
bioinformatics-pipeline genbank ncbi-submission ncbi-genbank cdc sra ncbi-sra ncbi-biosamples gisaid gisaid-uploader biosample gisaid-format gisaid-upload seqsender ncird ncird-id cdc-influenza-division
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Aug 11, 2026 - Python
Workflow to download, process, and explore microbial RNA-seq data from NCBI SRA
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Feb 29, 2024 - HTML
Extract metadata from biosamples in NCBI
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Mar 12, 2026 - Python
A tool to prepare files and run/monitor programmatic submissions to NCBI
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Mar 5, 2024 - Python
This Python script retrieve all children organism under an ancestor in NCBI taxonomy.
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Feb 19, 2025 - Python
HULK is a fully automated, containerized pipeline for processing bulk RNA-seq data directly from SRA accessions
bioinformatics rna-seq computational-biology bioinformatics-pipeline rnaseq rna-seq-analysis rna-seq-data bioinformatics-analysis rna-seq-pipeline bioinformatics-tool bulk-rna-seq ncbi-sra ncbi-biosamples rnaseq-pipeline
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Aug 12, 2026 - Python
De novo genome assembly and structural annotation of bacterial isolate SRR25083113 using SPAdes, Prodigal, Barrnap, and ARAGORN — a macOS ARM–compatible pipeline alternative to QUAST/Prokka.
bioinformatics genomics genome-annotation microbial-genomics illumina spades genome-assembly de-novo-assembly prodigal ncbi-sra barrnap bacterial-genomics aragorn
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Jun 20, 2026 - R
fast utils for fetch and dump NCBI SRA archive raw data
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May 25, 2023 - Python
Data and code used in the Plant Genomes dashboard
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Mar 13, 2022 - R
Pulls Metadata from NCBI based on Sample name or SRR #
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Apr 27, 2021 - PowerShell
The Docker integration for the r2g project.
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Aug 10, 2020 - Dockerfile
Understanding the NCBI SRA Validator AI Think of this application as a Flight Simulator for DNA Data designed to optimize cloud operations for the world's largest biological databases. The Federal Ecosystem: NIH, NLM, and NCBI The National Institutes of Health (NIH) is the primary U.S. federal agency for medical research.
react python rna-seq typescript react-native ai reactjs artificial-intelligence dna ncbi dna-sequences nih dna-sequencing ncbi-sra petabyte ai-chatbot petabyte-scale
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Dec 14, 2025 - TypeScript
R client for accessing the omicidx database
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Jul 23, 2026 - R
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