I have got some samples for metatranscriptomics data analysis.
Please suggest any pipeline and workflow for that.
What have you tried? What do you plan to achieve with this analysis? That will outline your approach and you can then build a pipeline with that well defined approach in mind.
Please be more specific and descriptive. What do you have? Why do you have it? Where did it come from? (plus what @_r_am said). Your question is similar to "I have some data, please suggest a way to interpret it."
I would like to compare functional and structural traits of microbial in three different soil samples. I got data from Illumina sequencing of cDNA to study differential expression of carbon genes among three soil samples. Please suggest any pipelines and bioinformatic tools for data analysis. I found some pipelines such as Samsa2 (https://github.com/transcript/samsa2), MetaTrans, please suggest if these are good options.
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