I want to preface this question by saying that I am a complete noob when it comes to rna seq data analysis and bioinformatics in general. I had some sequencing done by my university's core for 8 samples - 4 conditions with 2 replicates each, and I would like to show with figures the similarities between the four conditions and also the differences. Does anyone have any input on the best way to do this? I am thinking a PCA plot, heat map with all of the genes that are similar, and a heat map with all that are different. Does this sound like a reasonable approach? As far as I am concerned, heat maps would only show the fold change, but I think it would also be informative to show the absolute expression -- I am wondering if maybe not heat plots and instead use simple bar graphs with TPM values? Lastly, I am in a bit of a rush to get some figures made for a manuscript and if you have any recommendations as to how to do this in a quick, cost-effective, user-friendly web-based manner, please let me know. Any help would be much appreciated!
Thank you in advance!