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1. natrvc natrvc Public

   Night at the RVC App

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2. lincs-embedding lincs-embedding Public

   End‑to‑end pipeline for generating context‑aware drug embeddings from LINCS L1000 using RNA‑seq preprocessing, STRING PPI networks, and GNNs, with UMAP visualisation and drug‑class neighbourhood an…

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3. sra-download sra-download Public

   A modular, HPC‑oriented pipeline for querying NCBI BioProjects and downloading SRA run data using EDirect and a pinned SRA Toolkit, with restart‑safe, per‑accession isolation and tmux‑based executi…

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4. nnbuilder nnbuilder Public

   NNBuilder is a lightweight, chainable utility class built on top of PyTorch’s `nn.Module`, designed to simplify the construction of sequential, fully‑connected neural networks.

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5. fastq-trim fastq-trim Public

   A modular, contract‑driven, SLURM‑compatible HPC pipeline for adapter removal and quality trimming of paired‑end FASTQ sequencing data using BBDUK or Trimmomatic, featuring explicit execution ABI, …

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6. fastq-qc fastq-qc Public

   A modular, contract‑driven, SLURM‑compatible HPC pipeline for quality control of FASTQ sequencing data using FastQC and MultiQC, featuring explicit execution ABI, strict preflight validation, and r…

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