GFF annotation characterization / descriptive stats

Question

[bernd.jagla]

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

Answer 1

[h.mon]

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