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Old 07-09-2015, 06:28 AM   #1
papori
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Default ReadDepth manual or example

Hi all,
Do u know where can i find the manual or normal example of ReadDepth tool?
not the same example as here:
https://github.com/chrisamiller/readdepth
Its not detailed enough...
it R package, but i cant find it..
Thanks,
Pap
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Old 07-13-2015, 04:51 AM   #2
papori
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Any ideas for how to use this package?
Thanks,
Pap
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Old 07-13-2015, 05:07 AM   #3
GenoMax
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Have you looked at the text here: https://github.com/chrisamiller/read...n/readDepth.Rd

If that is not detailed enough you should email the author directly for additional help: https://github.com/chrisamiller
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Old 07-13-2015, 05:15 AM   #4
papori
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Quote:
Originally Posted by GenoMax View Post
Have you looked at the text here: https://github.com/chrisamiller/read...n/readDepth.Rd

If that is not detailed enough you should email the author directly for additional help: https://github.com/chrisamiller
Hi GenoMax,
Yes, i saw this already and it's not detailed enough, at least for me..
I sent email to the author and waiting for his response..
I was sure that every package in R must have vignette/ or at least simple manual..

Thanks,
Pap
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Old 07-14-2015, 02:59 AM   #5
papori
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Ok, he didnt answer me yet..
In the meanwhile, can u reccomened on a easy to execute tool for exploring the read depth over the human genome?
Thanks,
Pap
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Old 07-14-2015, 08:35 AM   #6
GenoMax
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How about genomecov (http://bedtools.readthedocs.org/en/l...genomecov.html) or coveragebed (http://bedtools.readthedocs.org/en/l...overage.html)? Those should work for what you are trying to do.
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Old 07-15-2015, 02:07 PM   #7
papori
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Quote:
Originally Posted by GenoMax View Post
How about genomecov (http://bedtools.readthedocs.org/en/l...genomecov.html) or coveragebed (http://bedtools.readthedocs.org/en/l...overage.html)? Those should work for what you are trying to do.
ohh cool!
Thanks!! I like bedtools!
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