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3 hours ago by

Hello everyone, I had tried comparing two gene expression datasets in the .tsv file formats (reads quantified using Salmon) that were obtained from the RefineBio website. I was able to annotate the data using Galaxy using a GTF file from ENSEMBL, but when I tried using edgeR or limma, an error would occur. I was wondering if there is another way to compare datasets and build a volcano plot to show the differentially expressed genes between two samples.

RefineBio link to data: www.refine.bio/experiments/SRP117268/transcriptome-analysis-reveals-determinant-stages-controlling-human-embryonic-stem-cell-commitment-to-neuronal-cells

The expression files for each day (day0-22) are available. My goal is to compare day 0 with days 2, 4, and 6. I want to make volcano plots for each comparison and find the differentially expressed genes.

Thank you in advance !!

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modified 3 hours ago

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dsull1.8k

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3 hours ago
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sujitsilas0



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