Mercurial > repos > mingchen0919 > rmarkdown_deseq2
changeset 3:15a5fb1a2ac8 draft
planemo upload for repository https://github.com/statonlab/docker-GRReport/tree/master/my_tools/rmarkdown_deseq2 commit 9285c2b8ad41a486dde2a87600a6b8267841c8b5-dirty
| author | mingchen0919 |
|---|---|
| date | Tue, 08 Aug 2017 11:45:42 -0400 |
| parents | a0d37b034e45 |
| children | 7f0281d26b81 |
| files | DESeq.xml DESeq_results.xml DESeq_visualization.xml |
| diffstat | 3 files changed, 150 insertions(+), 0 deletions(-) [+] |
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--- a/DESeq.xml Tue Aug 08 10:56:49 2017 -0400 +++ b/DESeq.xml Tue Aug 08 11:45:42 2017 -0400 @@ -77,4 +77,54 @@ <data name="DESeq" format="html" label="DESeq Analysis" /> <data name="deseq_workspace" format="rdata" label="R workspace: DESeq analysis" /> </outputs> + <citations> + <citation> + @article{love2014moderated, + title={Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2}, + author={Love, Michael I and Huber, Wolfgang and Anders, Simon}, + journal={Genome biology}, + volume={15}, + number={12}, + pages={550}, + year={2014}, + publisher={BioMed Central} + } + </citation> + <citation type="bibtex"> + @article{allaire2016rmarkdown, + title={rmarkdown: Dynamic Documents for R, 2016}, + author={Allaire, J and Cheng, Joe and Xie, Yihui and McPherson, Jonathan and Chang, Winston and Allen, Jeff and Wickham, Hadley and Atkins, Aron and Hyndman, Rob}, + journal={R package version 0.9}, + volume={6}, + year={2016} + } + </citation> + <citation type="bibtex"> + @book{xie2015dynamic, + title={Dynamic Documents with R and knitr}, + author={Xie, Yihui}, + volume={29}, + year={2015}, + publisher={CRC Press} + } + </citation> + <citation> + @misc{pheatmap2015, + title = {pheatmap: Pretty Heatmaps}, + author = {Raivo Kolde}, + year = {2015}, + note = {R package version 1.0.8}, + url = {https://CRAN.R-project.org/package=pheatmap}, + } + </citation> + <citation> + @misc{dt2016, + title = {DT: A Wrapper of the JavaScript Library 'DataTables'}, + author = {Yihui Xie}, + year = {2016}, + note = {R package version 0.2}, + url = {https://CRAN.R-project.org/package=DT}, + } + </citation> + </citations> </tool> \ No newline at end of file
--- a/DESeq_results.xml Tue Aug 08 10:56:49 2017 -0400 +++ b/DESeq_results.xml Tue Aug 08 11:45:42 2017 -0400 @@ -85,4 +85,54 @@ <outputs> <data name="deseq_results" format="html" label="DESeq Results" /> </outputs> + <citations> + <citation> + @article{love2014moderated, + title={Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2}, + author={Love, Michael I and Huber, Wolfgang and Anders, Simon}, + journal={Genome biology}, + volume={15}, + number={12}, + pages={550}, + year={2014}, + publisher={BioMed Central} + } + </citation> + <citation type="bibtex"> + @article{allaire2016rmarkdown, + title={rmarkdown: Dynamic Documents for R, 2016}, + author={Allaire, J and Cheng, Joe and Xie, Yihui and McPherson, Jonathan and Chang, Winston and Allen, Jeff and Wickham, Hadley and Atkins, Aron and Hyndman, Rob}, + journal={R package version 0.9}, + volume={6}, + year={2016} + } + </citation> + <citation type="bibtex"> + @book{xie2015dynamic, + title={Dynamic Documents with R and knitr}, + author={Xie, Yihui}, + volume={29}, + year={2015}, + publisher={CRC Press} + } + </citation> + <citation> + @misc{pheatmap2015, + title = {pheatmap: Pretty Heatmaps}, + author = {Raivo Kolde}, + year = {2015}, + note = {R package version 1.0.8}, + url = {https://CRAN.R-project.org/package=pheatmap}, + } + </citation> + <citation> + @misc{dt2016, + title = {DT: A Wrapper of the JavaScript Library 'DataTables'}, + author = {Yihui Xie}, + year = {2016}, + note = {R package version 0.2}, + url = {https://CRAN.R-project.org/package=DT}, + } + </citation> + </citations> </tool> \ No newline at end of file
--- a/DESeq_visualization.xml Tue Aug 08 10:56:49 2017 -0400 +++ b/DESeq_visualization.xml Tue Aug 08 11:45:42 2017 -0400 @@ -91,4 +91,54 @@ <outputs> <data name="deseq_visualization" format="html" label="DESeq Visualization" /> </outputs> + <citations> + <citation> + @article{love2014moderated, + title={Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2}, + author={Love, Michael I and Huber, Wolfgang and Anders, Simon}, + journal={Genome biology}, + volume={15}, + number={12}, + pages={550}, + year={2014}, + publisher={BioMed Central} + } + </citation> + <citation type="bibtex"> + @article{allaire2016rmarkdown, + title={rmarkdown: Dynamic Documents for R, 2016}, + author={Allaire, J and Cheng, Joe and Xie, Yihui and McPherson, Jonathan and Chang, Winston and Allen, Jeff and Wickham, Hadley and Atkins, Aron and Hyndman, Rob}, + journal={R package version 0.9}, + volume={6}, + year={2016} + } + </citation> + <citation type="bibtex"> + @book{xie2015dynamic, + title={Dynamic Documents with R and knitr}, + author={Xie, Yihui}, + volume={29}, + year={2015}, + publisher={CRC Press} + } + </citation> + <citation> + @misc{pheatmap2015, + title = {pheatmap: Pretty Heatmaps}, + author = {Raivo Kolde}, + year = {2015}, + note = {R package version 1.0.8}, + url = {https://CRAN.R-project.org/package=pheatmap}, + } + </citation> + <citation> + @misc{dt2016, + title = {DT: A Wrapper of the JavaScript Library 'DataTables'}, + author = {Yihui Xie}, + year = {2016}, + note = {R package version 0.2}, + url = {https://CRAN.R-project.org/package=DT}, + } + </citation> + </citations> </tool> \ No newline at end of file