websites/dennogumi.org-archive
Archived
1
0
Fork 0
Code Releases Activity

Second round, clean up http:// links with {{ site.url }}

Browse source
This commit is contained in:
Luca Beltrame 2015-05-16 12:27:23 +02:00
parent 788e4609f6
commit a6570a4144
122 changed files with 278 additions and 278 deletions
Download patch file Download diff file Expand all files Collapse all files

4
_posts/2007-11-07-data-clustering-with-python.markdown
View file

@ -16,7 +16,7 @@ tags:
- R
---
**Notice:**Just now I realized this has been linked to [to a Stack Overflow question](http://stackoverflow.com/questions/5002783/best-python-clustering-library-to-use-for-product-data-analysis). I recently wrote a new post that uses a different technique and a combination of R and Python. [Check it out!](http://www.dennogumi.org/2011/05/multiscale-bootstrap-clustering-with-python-and-r)
**Notice:**Just now I realized this has been linked to [to a Stack Overflow question](http://stackoverflow.com/questions/5002783/best-python-clustering-library-to-use-for-product-data-analysis). I recently wrote a new post that uses a different technique and a combination of R and Python. [Check it out!]({{ site.url }}/2011/05/multiscale-bootstrap-clustering-with-python-and-r)
Following up my recent post, I've been looking for alternatives to TMeV. So far I've found the R package pvclust and the [Pycluster library](http://bonsai.ims.u-tokyo.ac.jp/~mdehoon/software/cluster/software.htm#pycluster), part of [BioPython](http://biopython.org). The first one also performs bootstrapping (I'm not sure if it's similar to what support trees do, but it's still better than no resampling at all). I've found [another Python project](http://python-cluster.sourceforge.net/) but it is still too basic to perform what I need.
@ -45,7 +45,7 @@ data.save("name",gene_clustering,exp_clustering)
[Java TreeView](http://jtreeview.sourceforge.net/) is a program to view trees and heat maps. Unlike its counterpart TreeView, it's truly cross-platform (Java) and GPLed, a nice added bonus. You can load the files directly and display the results like in this picture, taken with the sample data available on the project page.
[![Java TreeView](http://www.dennogumi.org/images/2007/11/treeview.thumbnail.png)](http://www.dennogumi.org/images/2007/11/treeview.png)
[![Java TreeView]({{ site.url }}/images/2007/11/treeview.thumbnail.png)]({{ site.url }}/images/2007/11/treeview.png)
It's still not perfect (no data shown on the main map page, only with the detailed view) but a good start, nevertheless. I'll investigate whether I can complement TMeV usage with these tools.