Question: (Closed) Where did CellMix go? (Anyone know of cell-type deconvolution methods for array data that would work as well?)
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gravatar for Adamc
4.9 years ago by
Adamc640
United States
Adamc640 wrote:

Recently, I was thinking of trying out a cell type deconvolution method ("in silico sorting") to try to remove expression associated with a possibly contaminating cell type in a gene expression profile from samples that were actually FACS sorted but seem to have some expression of markers that are strongly associated with another cell type. I was going to try to use PSEA (which is in BioC now) but I had previously heard a lot about CellMix, so I was thinking of trying that out as well.

Except it looks like the CellMix site is now inaccessible, and has been for at least a month now. I found that I can get it out of https://r-forge.r-project.org/scm/viewvc.php/pkg/CellMix/?root=cellmix but it doesn't have the newest release. Anyone have an archive of CellMix somewhere? Or have any alternative suggestions or approaches to try to achieve a similar result? (I checked archive.org but they didn't capture the whole project site- no downloads, and not all of the documentation either)

Thanks for the assistance.

 

EDIT: The site for CellMix is back up now.

microarray R • 2.4k views
ADD COMMENTlink modified 4.7 years ago • written 4.9 years ago by Adamc640

Hello Adamc!

We believe that this post does not fit the main topic of this site.

Issue resolved.

For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with.

If you disagree please tell us why in a reply below, we'll be happy to talk about it.

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ADD REPLYlink written 4.7 years ago by Adamc640
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gravatar for Ahill
4.9 years ago by
Ahill1.8k
United States
Ahill1.8k wrote:

For alternative options, you may want to check the link to the Shen-Orr 2013 review (see Table 1 for example) in this post: Differential gene expession analysis in cell populations of mixed tumor and normal cells

 

ADD COMMENTlink written 4.9 years ago by Ahill1.8k
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