Hi,
why we performed cufflinks and what does the assembled transcripts mean? I read the protocol, if I am right that cufflink will provide a reference transcriptome on which the reads can be aligned and enables use to calculate the expression level of genes???
1 answer
Cufflinks builds the transcriptome for a sample. Transcripts are assembled using aligned reads which you provide in the form of a bam file. It also quantifies the assembles transcripts. Reference transcriptome is provided if it is available for that species. It helps cufflinks in building the transcriptome of the sample.
What makes you think people aren't allowed to help you? You need a basic understanding of what you are doing, why you do those steps and how these work. Without those, your research and results are pointless. Methods matter...
No worries. Before you post anything online, I'd recommend you compose yourself, take a few deep breaths, then re-read your post until you're sure everyone will understand the content. Hold yourself to better standards - we are all happy to watch one another grow and get better.
I'm glad to help you with any questions you may have, but part of growing is realizing how to ask the right questions. At your stage, you need to look at the bigger picture and focus on the science behind the process. Following instructions or doing something just because your advisor asked you to would help you in the short term, but will hinder your growth as a scientist.
I wish you and everyone here the best, and that is why I insist everyone ask why before doing anything. You deserve to know, and you deserve to know better.
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Discuss with who asked you to perform cufflinks. They may have better understanding why did "you" performed cufflinks.
I am just wondering how can you ask "why we performed cufflinks" ?
she only asked me to prepare DE genes for her now asking why I did so :(