MicroRNAs (miRNA) are important temperature-sensitive gene-expression. Moreover, climate change is expected to shift temperature profiles worldwide. Temperature may change seasonally in the wild, and in captivity under aquaculture operations. I would encourage you to seek further support in your research community and start fiddling around with RStudio and these various packages. Environmental effects and, particularly, temperature changes have been demonstrated to influence the activity, function, and well-being of teleosts. I feel publishing with these types of R packages are more credible in the literature as well. Workflows can combine quality control steps, adapter trimming, read mapping, variant detection, and multiple filtering and annotation steps into a pipeline you can share with colleagues and execute with just one click. I don't know where you are at in your career, but learning these tools has made me feel ahead of the game and more trusting of my results. QIAGEN CLC Genomics Workbench is developed to support a wide range of NGS bioinformatics applications. Many others have stood where you're standing, resulting in a lot of blog posts etc.
Although, command line analysis is quite difficult at times to learn and incredibly frustrating, it's not impossible. Therefore, I would advise to use CLC as more of a preliminary analysis tool. I ended up getting clearer results that I trusted and understood better after abandoning CLC and using DESeq and EdgeR (with DESeq being my preferred method). Hi Cristina, I previously used CLC for RNA-Seq analysis and fiddled with lots of parameters, my final output delivered a low number of differentially expressed genes (DEG) that were uninformative. Message me if you'd like to see some codes I've used or have any other questions. I would encourage you to seek further support in your research community and start fiddling around with RStudio and these various packages. I don't know where you are at in your career, but learning these tools has made me feel ahead of the game and more trusting of my results. Many others have stood where you're standing, resulting in a lot of blog posts etc. CLC Genomics Workbench - Introduction Widely used, cutting edge multifunctional Windows-based NGS analysis and visualization platform Allows you to do Guided genome assembly, RNA-seq analysis, Epigenomic analysis, De Novo Sequencing (see Genome Assembly class, week 15, Dec.
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