Question: Convertion to gff3 format
0
gravatar for micro32uvas
3.2 years ago by
micro32uvas10
Pakistan
micro32uvas10 wrote:

Hi everyone,

I have this data about mirna, including its name, accession id, start and end of both hairpin and mature mirna, its sequence and +/- strand in tab delimited format in gedit/notepad++

i want to convert it into gff3 format. can anyone help??

ADD COMMENTlink modified 3.2 years ago by michael.ante3.2k • written 3.2 years ago by micro32uvas10
0
gravatar for michael.ante
3.2 years ago by
michael.ante3.2k
Austria/Vienna
michael.ante3.2k wrote:

Hi micro32uvas,

please have a look at the gff3 specifications (e.g. here). You can use command-line commands like awk to pick the columns of your file in the correct order. Alternatively, you can use Galaxy and click to "Text Manipulation->Cut columns from a table".

Denote, that some programs produces 0-based positions, which need to be converted for gff3 (1-based).

Cheers,

Michael

ADD COMMENTlink written 3.2 years ago by michael.ante3.2k
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