Question: Software to analyze Diamond data
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gravatar for cupplesa
2.9 years ago by
cupplesa0
cupplesa0 wrote:

I have generated a diamond file by aligning a set of genes to a set of shotgun sequencing data.

Could you recommend a software to analyze the data? The file is too big to manipulate in excel.

I have tried Megan, but this seems to use only KEGG, SEED etc, not a set of predefined genes.

alignment • 884 views
ADD COMMENTlink written 2.9 years ago by cupplesa0

You need to add additional clarification as to what exactly you are doing.

Are you referring to DIAMOND that is used as a BLAST+ replacement to do blastx searches? Why were you aligning known genes to shotgun sequences (rather than other way around)? What kind of known genes are these (NCBI nr)?

ADD REPLYlink modified 2.9 years ago • written 2.9 years ago by genomax89k

Hey, guys. I am having the same issue. I have aligned a set of shotgun sequencing data against nearly 600 genes using DIAMOND blastx. I want to know which genes are present and which are absent in my shotgun sequencing data! Do you have any recommendation how can I do it?

ADD REPLYlink written 2.7 years ago by Ana170
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