STRING database threshold value
0
0
Entering edit mode
6.2 years ago

Dear all I have some protein sequences and I want to get Protein-protein interaction using STRING database. From string API, I have downloaded all the COG.links.detailed.v10.5.txt.gz (209.2 Mb) which contains all the scores. But I have those having medium score threshold only. Is there any option to do that or any script. I have interactions like this.

575584.HMPREF0010_00003 575584.HMPREF0010_00012 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00004 640 0   0   0   0   0   0   640
575584.HMPREF0010_00003 575584.HMPREF0010_00013 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00010 180 0   0   0   0   0   0   180
575584.HMPREF0010_00003 575584.HMPREF0010_00006 477 0   0   0   0   0   0   477
575584.HMPREF0010_00003 575584.HMPREF0010_00009 180 0   0   0   0   0   0   180
575584.HMPREF0010_00003 575584.HMPREF0010_00005 477 0   0   0   0   0   0   477
575584.HMPREF0010_00003 575584.HMPREF0010_00011 168 0   0   0   0   0   0   168
575584.HMPREF0010_00003 575584.HMPREF0010_00007 285 0   0   0   0   0   0   285
575584.HMPREF0010_00003 575584.HMPREF0010_00008 200 0   0   0   0   0   0   200

I want to retrive only medium threshold values.

genome STRING database • 1.3k views
ADD COMMENT
0
Entering edit mode

How the medium threshold values relate to the table you downloaded?

ADD REPLY
0
Entering edit mode

The last column is the combined score values and I wanted to get all the interacting partners having medium threshold using STRING database.

ADD REPLY

Login before adding your answer.

Traffic: 2703 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6