User: domi84

gravatar for domi84
domi8440
Reputation:
40
Status:
New User
Location:
Glasgow University
Twitter:
@dom_somma
Last seen:
2 months, 1 week ago
Joined:
1 year, 4 months ago
Email:
d*************@glasgow.ac.uk

Posts by domi84

<prev • 6 results • page 1 of 1 • next >
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Answer: A: planemo test --install_galaxy error
... I fixed it deleting .venv and .planemo folders, and doing it again: so: virtualenv .venv; . .venv/bin/activate pip install planemo planemo t --install_galaxy and it worked ...
written 6 months ago by domi8440
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planemo test --install_galaxy error
... Hi, I am trying to wrapping a tool for Galaxy. I made a simple xml file with planemo and planemo lint is working fine as well. (.venv) domenico@domenico-ThinkCentre-M93p:~$ planemo l Linting tool /home/domenico/papillon.xml Applying linter tests... CHECK .. CHECK: 1 test(s) fou ...
planemo written 6 months ago by domi8440
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Comment: C: Papillon: a python alternative to plot/heatmap Galaxy RNA-seq data
... Hi, Thanks! that's useful. I need to change a bit the module, because now is working only through a scientific IDE, but it is something doable. I hope to receive some feedback before go ahead. Thanks. Dom ...
written 6 months ago by domi8440
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Tool: Papillon: a python alternative to plot/heatmap Galaxy RNA-seq data
... Hello, I learned how to do a RNA-seq using Galaxy, without use the terminal. But then, we you want investigate your results deeply, search/plot specific genes or make a heatmap with some selected genes you need to learn how to use R and cummeRbund. I didn't know R very well, so I wrote a python mo ...
cuffdiff rna-seq heatmap tool cummerbund written 6 months ago by domi8440 • updated 6 months ago by Jennifer Hillman Jackson25k
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Answer: A: Is there an alternative tool to plot RNA-Seq differential expression than cummeR
... Hello, I recently wrote a python module to plot genes expression. It is [available here.][1] Any feedback would be appreciate. Thanks Dom [1]: https://github.com/domenico-somma/Papillon ...
written 6 months ago by domi8440
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Answer: A: Heatmap using cummeRbund
... Hi, you can use cummeRbund directly on Galaxy only selecting genes one by one, otherwise you need to download and use cummeRbund with R. As an alternative I wrote a Python module named Papillon [available here ][1]. Should be easy to use. Best Regards Dom [1]: https://github.com/domenico-somma/P ...
written 6 months ago by domi8440

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