What are some common (good) approaches to summarize and report BLAST results in an effective way when there are too many sequences?

Question

[tuzyx]

I have been looking for guidelines on reporting the results of an experiment that involves hundreds of thousands of BLAST searches, but I have not found anything.

My question is; how would you go about reporting and summarizing such a vast array of information? Say, you have 50000 separate sequences and you have ran a BLAST search on all of them, and for each you have received at least 2-3 significant results. How would you report the finding? Are there any packages and software that can be helpful in the process?

[Sean Davis]

What is it that you want to learn from your results? Are you comfortable in any particular programming languages, such as R or python?

[tuzyx]

@Sean Davis: Yes. I am more than comfortable with programming in R. From my results, I want to learn whether each sequence gives me at least one hit with 100% identity.

Answer 1

[lakhujanivijay]

I don't think there would be any such guidelines and that would heavily be dependent on user's discretion. For e.g. a user did a blastx for his/her sequences and wants to find to what organisms his sequences belong; i.e. a generalized picture. In that case a barplot of the top organism distribution may help; see the one given below

EDIT 1

This one is produced by Blast2GO software

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Or something like this?