Question: Calculate gene-gene distance on the circular genome of e.coli
0
gravatar for Benni
3.4 years ago by
Benni30
Benni30 wrote:

I have a gene annotation with: Left-End-Direction, Right-End-Direction and Transcription Direction. To get the coordinate of the gene, I would take the Left- or Right-End-Direction based on the Transcription Direction. So I have the transcription start as the coordinate.

But I canĀ“t simply subtract the coordinate and take the absolute value, because the chromosome is circular and the coordinates go from 0 to 4641628. The gene distance of a gene close to the end and a gene close to the start needs a different calculation than two genes in the middle.

Are there already tools for that calculation, or do I have to write the code by myself?

dna e.coli gene • 732 views
ADD COMMENTlink written 3.4 years ago by Benni30
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1516 users visited in the last hour