Bioconductor: Difference between revisions

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* https://support.bioconductor.org/p/68824/ Announcement
* https://support.bioconductor.org/p/68824/ Announcement


== NIH mirror ==
== [http://watson.nci.nih.gov/bioc_mirror/ NIH mirror] ==
http://watson.nci.nih.gov/bioc_mirror/. We can safely replace http://www.bioconductor.org/ with http://watson.nci.nih.gov/bioc_mirror/.  
We can safely replace http://www.bioconductor.org/ with http://watson.nci.nih.gov/bioc_mirror/.  


For example, the 'Biobase' url in the original and nih mirror can be found in
For example, the 'Biobase' url in the original and nih mirror can be found in
Line 22: Line 22:
->
->
http://watson.nci.nih.gov/bioc_mirror/packages/release/data/experiment/html/pasilla.html
http://watson.nci.nih.gov/bioc_mirror/packages/release/data/experiment/html/pasilla.html
</pre>
For R software, the NIH mirror is http://watson.nci.nih.gov/cran_mirror. So for example, the R v3.2.1 url in main CRAN and NIH is
<pre>
http://cran.r-project.org/bin/windows/base/R-3.2.1-win.exe
->
http://watson.nci.nih.gov/cran_mirror/bin/windows/base/R-3.2.1-win.exe
</pre>
and the 'MASS' package is
<pre>
http://cran.r-project.org/web/packages/MASS/index.html
->
http://watson.nci.nih.gov/cran_mirror/web/packages/MASS/index.html
</pre>
</pre>



Revision as of 11:13, 29 June 2015

Github Mirrors

NIH mirror

We can safely replace http://www.bioconductor.org/ with http://watson.nci.nih.gov/bioc_mirror/.

For example, the 'Biobase' url in the original and nih mirror can be found in

http://www.bioconductor.org/packages/release/bioc/html/Biobase.html 
-> 
http://watson.nci.nih.gov/bioc_mirror/packages/release/bioc/html/Biobase.html

and the hgu133plusdb is

http://www.bioconductor.org/packages/release/data/annotation/html/hgu133plus2.db.html
->
http://watson.nci.nih.gov/bioc_mirror/packages/release/data/annotation/html/hgu133plus2.db.html

and the experiment data package like pasilla

http://www.bioconductor.org/packages/release/data/experiment/html/pasilla.html
->
http://watson.nci.nih.gov/bioc_mirror/packages/release/data/experiment/html/pasilla.html

For R software, the NIH mirror is http://watson.nci.nih.gov/cran_mirror. So for example, the R v3.2.1 url in main CRAN and NIH is

http://cran.r-project.org/bin/windows/base/R-3.2.1-win.exe
->
http://watson.nci.nih.gov/cran_mirror/bin/windows/base/R-3.2.1-win.exe

and the 'MASS' package is

http://cran.r-project.org/web/packages/MASS/index.html
->
http://watson.nci.nih.gov/cran_mirror/web/packages/MASS/index.html

Annotation packages

http://bioconductor.org/help/course-materials/2012/SeattleFeb2012/Annotation.pdf

Gene centric

Genomic centric

Web based