Question: Chip-Seq, Encode Peaks And Galaxy
0
gravatar for Radhouane Aniba
7.2 years ago by
Radhouane Aniba40 wrote:
Hi everyone, I have a list of genomic regions with some variants and would like to study the correlation between theses variants and epigenomics marks such as histone modifications. hsitone modifications and would like to know if there is a way to create a pipeline using galaxy to map my variants, depending on genomic regions to the information I have from the histone modification peaks. Is there someone who can point me to a step by step to do things to start using Galaxy ? Thank you Rad
galaxy • 914 views
ADD COMMENTlink modified 7.2 years ago by Jennifer Hillman Jackson25k • written 7.2 years ago by Radhouane Aniba40
0
gravatar for Jennifer Hillman Jackson
7.2 years ago by
United States
Jennifer Hillman Jackson25k wrote:
Hello Rad, Dan will be able to help you get started and build up a workflow for your analysis. He is currently on vacation, but will be returning soon and will contact you directly when he returns. We are very sorry about the delayed reply. Please know that we definitely want to help you to use Galaxy for your project, We will be in touch, Best, Jen Galaxy team -- Jennifer Jackson http://usegalaxy.org/ http://galaxyproject.org/
ADD COMMENTlink written 7.2 years ago by Jennifer Hillman Jackson25k
Please keep me on the loop as I am also interested in similar workflow. Many thanks and best regards, Jorge
ADD REPLYlink written 7.2 years ago by Jorge Andrade20
Thanks Jennifer Rad 2011/6/23 Jorge Andrade <andrade.jorge@gmail.com> -- *Radhouane Aniba* *Bioinformatics Postdoctoral Research Scientist* *Institute for Advanced Computer Studies Center for Bioinformatics and Computational Biology* *(CBCB)* *University of Maryland, College Park MD 20742*
ADD REPLYlink written 7.2 years ago by Radhouane Aniba40
0
gravatar for Daniel Blankenberg
7.0 years ago by
Daniel Blankenberg ♦♦ 1.7k
United States
Daniel Blankenberg ♦♦ 1.7k wrote:
Hi Rad, Jorge, Sorry for the delay in reply. We have not yet released a pre-canned workflow to do this. However, if you are looking to associate one set of Genomic interval/region data with another set, Galaxy's interval operation tools are a good place to begin. There are good examples of using these tools available through screencasts (http://galaxycast.org), Galaxy 101 (http://usegalaxy.org/galaxy101), as well as the wiki (http://wiki.g2.bx.psu.edu/Learn/Interval%20Operations). Please let us know if we can provide additional information. Thanks for using Galaxy, Dan
ADD COMMENTlink written 7.0 years ago by Daniel Blankenberg ♦♦ 1.7k
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 16.09
Traffic: 150 users visited in the last hour