Question: What are some common (good) approaches to summarize and report BLAST results in an effective way when there are too many sequences?
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gravatar for tuzyx
4 months ago by
tuzyx0
tuzyx0 wrote:

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?

blast analysis • 197 views
ADD COMMENTlink modified 4 months ago by Vijay Lakhujani2.5k • written 4 months ago by tuzyx0

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

ADD REPLYlink written 4 months ago by Sean Davis24k

@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.

ADD REPLYlink written 4 months ago by tuzyx0
0
gravatar for Vijay Lakhujani
4 months ago by
Vijay Lakhujani2.5k
India
Vijay Lakhujani2.5k wrote:

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


may be this one



Or something like this?

or this one

ADD COMMENTlink modified 4 months ago • written 4 months ago by Vijay Lakhujani2.5k
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