Create the workflow in a jupyter notebook for RNA-Seq on PBMC Samples and create a PR to the main branch.

KastanDay / ML4Bio

LLMs to execute Bioinformatics workflows, esp. RNA-seq

MIT License

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Create the workflow in a jupyter notebook for RNA-Seq on PBMC Samples and create a PR to the main branch. #5

Open rohan-uiuc opened 1 year ago

rohan-uiuc commented 1 year ago

Experiment Type: RNA-Seq Sequencing of total cellular RNA

Workflow Management: Bash/SLURM Scripting and job scheduling

Software Stack: FastQC MultiQC STAR RSEM samtools DESeq2

What else to know about the pipeline? I am working PBMC samples collected from patients that are undergoing immunotherapy. Use the data files existing in Report_WholeBrain for execution tasks.

lil-jr-dev[bot] commented 1 year ago

Thanks for opening a new issue! I'll now try to finish this implementation and open a PR for you to review. I'll comment if I get blocked or 'request your review' if I think I'm successful. So just watch for emails while I work. Please comment to give me additional instructions.