how_to:studio:datamixer
Differences
This shows you the differences between two versions of the page.
| Both sides previous revision Previous revision Next revision | Previous revision | ||
|
how_to:studio:datamixer [2016/07/01 15:25] 132.168.72.206 |
how_to:studio:datamixer [2016/07/04 11:50] (current) 132.168.72.206 |
||
|---|---|---|---|
| Line 35: | Line 35: | ||
| ===== Available Functions ===== | ===== Available Functions ===== | ||
| + | |||
| + | ==== compute FDR Function ==== | ||
| + | |||
| + | This function is used by ProStar Macro to compute the FDR. | ||
| + | |||
| + | More information: | ||
| + | http://bioconductor.org/packages/release/bioc/vignettes/Prostar/inst/doc/Prostar_UserManual.pdf | ||
| ==== join Function ==== | ==== join Function ==== | ||
| Line 55: | Line 62: | ||
| ==== diff analysis Function ==== | ==== diff analysis Function ==== | ||
| - | This function is used for ProStar Macro. | + | This function is used by ProStar Macro. |
| Two tests are available : Welch t-test and Limma t-test. | Two tests are available : Welch t-test and Limma t-test. | ||
| Line 71: | Line 78: | ||
| ==== missing values filter Function ==== | ==== missing values filter Function ==== | ||
| - | This function is used for ProStar Macro to remove rows with too many missing quantitative values. | + | This function is used by ProStar Macro to remove rows with too many missing quantitative values. |
| The available missing values algorithm are: | The available missing values algorithm are: | ||
| Line 80: | Line 87: | ||
| ==== missing values imputation Function ==== | ==== missing values imputation Function ==== | ||
| - | This function is used for ProStar Macro to imput missing values. | + | This function is used by ProStar Macro to imput missing values. |
| More information: | More information: | ||
| Line 87: | Line 94: | ||
| ==== normalize Function ==== | ==== normalize Function ==== | ||
| - | This function is used for ProStar Macro to normalize quantitative values. | + | This function is used by ProStar Macro to normalize quantitative values. |
| More information on algorithms : http://bioconductor.org/packages/release/bioc/vignettes/Prostar/inst/doc/Prostar_UserManual.pdf | More information on algorithms : http://bioconductor.org/packages/release/bioc/vignettes/Prostar/inst/doc/Prostar_UserManual.pdf | ||
| Line 95: | Line 102: | ||
| pvalue and ttd functions are useful for XIC Quantitations | pvalue and ttd functions are useful for XIC Quantitations | ||
| + | |||
| + | |||
| + | ===== Prostar Macro ===== | ||
| + | |||
| + | {{:how_to:studio:prostarcheminement.png?800|}} | ||
| + | |||
| + | 1 : Add XIC Data to Data Analyzer from the Protein Set View. | ||
| + | |||
| + | 2 : Add Prostar Macro by a drag and drop and link XIC Data to the Macro | ||
| + | |||
| + | 3 : Process the Graph by clicking on the button | ||
| + | |||
| + | During the process, the Data Analyzer will ask you settings for each function. | ||
| + | |||
| + | 4 : Filter is needed only if you want to remove contaminants. Settings can be | ||
| + | validated with no parameters if you don't need it. | ||
| + | |||
| + | 5 : Log is needed to log abundances (Data from Proline). For Data coming from Max Quant, data | ||
| + | is already logged. | ||
| + | |||
| + | 6 to 12 : follow the settings asked ( you can find some help in Prostar documentation, or information in corresponding functions.) | ||
| + | |||
| + | During the process, results will be automatically displayed : calibration, scatter plot and FDR Result. | ||
| + | If you want to look at other results, right click on a function and select "Display in New Window" | ||
| + | |||
| + | Prostar User Manual : http://bioconductor.org/packages/release/bioc/vignettes/Prostar/inst/doc/Prostar_UserManual.pdf | ||
| + | |||
| + | Prostar Tutorial : | ||
| + | http://bioconductor.org/packages/release/bioc/vignettes/Prostar/inst/doc/Prostar_Tutorial.pdf | ||
| + | |||
how_to/studio/datamixer.1467379515.txt.gz · Last modified: 2016/07/01 15:25 by 132.168.72.206
Page Tools
Except where otherwise noted, content on this wiki is licensed under the following license: CC Attribution-Share Alike 4.0 International
