GFF annotation characterization / descriptive stats

Hi,

I am interested in descriptive statistics about a given annotation (GFF2/3) file. I am looking for statistics like:

how many genes are there? distribution of intron number/length
available attributes
gene lengths distribution
number of overlapping annotations (based on strand specific or disregarding strand information)
...

I was hoping that such a tool already existed...

Any suggestions / pointers are welcome!

Thanks in advance,
Bernd

gene gff annotation rna-seq genome

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updated 4.0 years ago by Ram

• written 10.7 years ago by bernd.jagla •

1 answer

Have a look at GenomeTools gt stat command. Also, see this post.

• 1 views • link

written 10.7 years ago by h.mon

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