Mercurial > repos > eschen42 > w4mcorcov
comparison w4mcorcov.xml @ 4:8bba31f628da draft
planemo upload for repository https://github.com/HegemanLab/w4mcorcov_galaxy_wrapper/tree/master commit 8f2dc8b66666340275cd8967e09c504720528462
| author | eschen42 |
|---|---|
| date | Sun, 04 Mar 2018 14:51:42 -0500 |
| parents | 5aaab36bc523 |
| children | 50f60f94c034 |
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| 3:5aaab36bc523 | 4:8bba31f628da |
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| 1 <tool id="w4mcorcov" name="OPLS-DA_Contrasts" version="0.98.6"> | 1 <tool id="w4mcorcov" name="OPLS-DA_Contrasts" version="0.98.7"> |
| 2 | 2 |
| 3 <description>OPLS-DA Contrasts of Univariate Results</description> | 3 <description>OPLS-DA Contrasts of Univariate Results</description> |
| 4 | 4 |
| 5 <requirements> | 5 <requirements> |
| 6 <requirement type="package">r-batch</requirement> | 6 <requirement type="package">r-batch</requirement> |
| 324 | 324 |
| 325 | 325 |
| 326 Motivation | 326 Motivation |
| 327 ---------- | 327 ---------- |
| 328 | 328 |
| 329 OPLS-DA\ :superscript:`®` and the SIMCA\ :superscript:`®` S-PLOT\ :superscript:`®` (Wiklund *et al.*, 2008) may be employed to draw attention to metabolomic features that are potential biomarkers, i.e. features that are potentially useful to discriminate to which class a sample should be assigned (e.g. Sun *et al.*, 2016). Workflow4Metabolomics (W4M, Giacomoni *et al.*, 2014, Guitton *et al.*, 2017) provides a suite of tools for preprocessing and statistical analysis of LC-MS, GC-MS, and NMR metabolomics data; however, it does not (as of release 3.0) include a tool for making the equivalent of an S-PLOT. | 329 OPLS-DA and the SIMCA S-PLOT (Wiklund *et al.*, 2008) may be employed to draw attention to metabolomic features that are potential biomarkers, i.e. features that are potentially useful to discriminate to which class a sample should be assigned (e.g. Sun *et al.*, 2016). Workflow4Metabolomics (W4M, Giacomoni *et al.*, 2014, Guitton *et al.*, 2017) provides a suite of tools for preprocessing and statistical analysis of LC-MS, GC-MS, and NMR metabolomics data; however, it does not (as of release 3.0) include a tool for making the equivalent of an S-PLOT. |
| 330 | 330 |
| 331 The S-PLOT is computed from mean-centered, pareto-scaled data. This plot presents the correlation of the first score vector from an OPLS-DA model with the sample-variables used to produce that model versus the covariance of the scores with the sample-variables. For OPLS-DA, the first score vector represents the variation among the sample-variables that is related to the predictor (i.e., the contrasting factor). | 331 The S-PLOT is computed from mean-centered, pareto-scaled data. This plot presents the correlation of the first score vector from an OPLS-DA model with the sample-variables used to produce that model versus the covariance of the scores with the sample-variables. For OPLS-DA, the first score vector represents the variation among the sample-variables that is related to the predictor (i.e., the contrasting factor). |
| 332 | 332 |
| 333 The primary aims of this tool are: | 333 The primary aims of this tool are: |
| 334 | 334 |
| 340 Description | 340 Description |
| 341 ----------- | 341 ----------- |
| 342 | 342 |
| 343 The purpose of the 'PLS-DA Contrasts' tool is to visualize GC-MS or LC-MS features that are possible biomarkers. | 343 The purpose of the 'PLS-DA Contrasts' tool is to visualize GC-MS or LC-MS features that are possible biomarkers. |
| 344 | 344 |
| 345 The W4M 'Univariate' tool (Thévenot *et al.*, 2015) adds the results of family-wise corrected pairwise significance-tests as columns of the **variableMetadata** dataset. | 345 The W4M 'Univariate' tool (Th]]>é<![CDATA[venot *et al.*, 2015) adds the results of family-wise corrected pairwise significance-tests as columns of the **variableMetadata** dataset. |
| 346 For instance, suppose that you ran Kruskal-Wallis testing for a column named 'cluster' in sampleMetadata that has values 'k1' and 'k2' and at least one other value. | 346 For instance, suppose that you ran Kruskal-Wallis testing for a column named 'cluster' in sampleMetadata that has values 'k1' and 'k2' and at least one other value. |
| 347 | 347 |
| 348 - A column of variableMetadata would be labelled 'cluster_kruskal_sig' and would have values '1' and '0'; when the samples are grouped by 'cluster', '1' means that there is strong evidence against the hypothesis that there is no difference among the intensities for the feature across all sample-groups. | 348 - A column of variableMetadata would be labelled 'cluster_kruskal_sig' and would have values '1' and '0'; when the samples are grouped by 'cluster', '1' means that there is strong evidence against the hypothesis that there is no difference among the intensities for the feature across all sample-groups. |
| 349 - A column of variableMetadata would be labelled 'cluster_kruskal_k1.k2_sig' and would have values '1' and '0', where '1' means that there is significant evidence against the hypothesis that samples from sampleMetadata whose 'cluster' column contains 'k1' or 'k2' have the same intensity for that feature. | 349 - A column of variableMetadata would be labelled 'cluster_kruskal_k1.k2_sig' and would have values '1' and '0', where '1' means that there is significant evidence against the hypothesis that samples from sampleMetadata whose 'cluster' column contains 'k1' or 'k2' have the same intensity for that feature. |
| 350 | 350 |
| 351 The 'PLS-DA Contrasts' tool produces graphics and data for OPLS-DA contrasts of feature-intensities between significantly different pairs of factor-levels. For each factor-level, the tool performs a contrast with all other factor-levels combined and then separately with each other factor-level. | 351 The 'PLS-DA Contrasts' tool produces graphics and data for OPLS-DA contrasts of feature-intensities between significantly different pairs of factor-levels. For each factor-level, the tool performs a contrast with all other factor-levels combined and then separately with each other factor-level. |
| 352 | 352 |
| 353 **Along the left-to-right axis, the plots show the supervised projection of the variation explained by the predictor** (i.e., the factor specified when invoking the tool); **the top-to-bottom axis displays the variation that is orthogonal to the predictor level** (i.e., independent of it). | 353 **Along the left-to-right axis, the plots show the supervised projection of the variation explained by the predictor** (i.e., the factor specified when invoking the tool); **the top-to-bottom axis displays the variation that is orthogonal to the predictor level** (i.e., independent of it). |
| 354 | 354 |
| 355 Although this tool can be used in a purely exploratory manner by supplying the variableMetadata file without the columns added by the W4M 'Univariate' tool, **the preferred workflow is to use univariate testing to exclude features that are not significantly different and use OPLS-DA to visualize the differences identified in univariate testing** (Thévenot *et al.*, 2015); an appropriate exception would be to visualize contrasts of a specific list of metabolites. | 355 Although this tool can be used in a purely exploratory manner by supplying the variableMetadata file without the columns added by the W4M 'Univariate' tool, **the preferred workflow is to use univariate testing to exclude features that are not significantly different and use OPLS-DA to visualize the differences identified in univariate testing** (Th]]>é<![CDATA[venot *et al.*, 2015); an appropriate exception would be to visualize contrasts of a specific list of metabolites. |
| 356 | 356 |
| 357 It must be stressed that there may be no *single* definitive computational approach to select features that are reliable biomarkers, especially from a small number of samples or experiments. A few possible choices are: | 357 It must be stressed that there may be no *single* definitive computational approach to select features that are reliable biomarkers, especially from a small number of samples or experiments. A few possible choices are: |
| 358 | 358 |
| 359 - picking features with maximum loadings along the projection parallel to the predictor (loadp), | 359 - picking features with maximum loadings along the projection parallel to the predictor (loadp), |
| 360 - examining extreme values on S-PLOTs (for which covariance is linearly related to loadp), | 360 - examining extreme values on S-PLOTs (for which covariance is linearly related to loadp), |
| 448 | 448 |
| 449 [OUT] Contrast-detail output PDF | 449 [OUT] Contrast-detail output PDF |
| 450 | Several plots for each two-projection OPLS-DA analysis: | 450 | Several plots for each two-projection OPLS-DA analysis: |
| 451 | 451 |
| 452 - (top-left) **correlation-versus-covariance plot** of OPLS-DA results (a work-alike for the S-PLOT, computed using formula in Supplement to Wiklund, *op. cit.*); point-color becomes saturated as the "variable importance in projection to the predictive components" (VIP\ :subscript:`4,p` from Galindo-Prieto *et al.* 2014) ranges from 0.83 and 1.21 (Mehmood *et al.* 2012) | 452 - (top-left) **correlation-versus-covariance plot** of OPLS-DA results (a work-alike for the S-PLOT, computed using formula in Supplement to Wiklund, *op. cit.*); point-color becomes saturated as the "variable importance in projection to the predictive components" (VIP\ :subscript:`4,p` from Galindo-Prieto *et al.* 2014) ranges from 0.83 and 1.21 (Mehmood *et al.* 2012) |
| 453 - (bottom-left) **model-overview plot** for the two projections; grey bars are the correlation coefficient for the fitted data; black bars indicate performance in cross-validation tests (Thévenot, 2017) | 453 - (bottom-left) **model-overview plot** for the two projections; grey bars are the correlation coefficient for the fitted data; black bars indicate performance in cross-validation tests (Th]]>é<![CDATA[venot, 2017) |
| 454 - (top-right) OPLS-DA **scores-plot** for the two projections (Thévenot *et al.*, 2015) | 454 - (top-right) OPLS-DA **scores-plot** for the two projections (Th]]>é<![CDATA[venot *et al.*, 2015) |
| 455 - (bottom-right) OPLS-DA **loadings-plot** for the two projections (*ibid.*) | 455 - (bottom-right) OPLS-DA **loadings-plot** for the two projections (*ibid.*) |
| 456 | 456 |
| 457 [OUT] Contrast Correlation-Covarinace data TABULAR | 457 [OUT] Contrast Correlation-Covarinace data TABULAR |
| 458 | A tab-separated values file of metadata for each feature for each contrast in which it was included. | 458 | A tab-separated values file of metadata for each feature for each contrast in which it was included. |
| 459 | Thus, a given feature may appear many times, but *the combination of featureID, factorLevel1, and factorLevel2 will be unique.* | 459 | Thus, a given feature may appear many times, but *the combination of featureID, factorLevel1, and factorLevel2 will be unique.* |
| 533 Working examples | 533 Working examples |
| 534 ---------------- | 534 ---------------- |
| 535 | 535 |
| 536 **Input files** | 536 **Input files** |
| 537 | 537 |
| 538 +-------------------+-------------------------------------------------------------------------------------------------------------------+ | 538 +-------------------------------------------------------------------------------------------------------------------+ |
| 539 | Input File | Download from URL | | 539 | Download from URL | |
| 540 +===================+===================================================================================================================+ | 540 +===================================================================================================================+ |
| 541 | Data matrix | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_dataMatrix.tsv | | 541 | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_dataMatrix.tsv | |
| 542 +-------------------+-------------------------------------------------------------------------------------------------------------------+ | 542 +-------------------------------------------------------------------------------------------------------------------+ |
| 543 | Sample metadata | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_sampleMetadata.tsv | | 543 | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_sampleMetadata.tsv | |
| 544 +-------------------+-------------------------------------------------------------------------------------------------------------------+ | 544 +-------------------------------------------------------------------------------------------------------------------+ |
| 545 | Variable metadata | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_variableMetadata.tsv | | 545 | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/input_variableMetadata.tsv | |
| 546 +-------------------+-------------------------------------------------------------------------------------------------------------------+ | 546 +-------------------------------------------------------------------------------------------------------------------+ |
| 547 | 547 |
| 548 **Example 1:** Include in the analysis only features identified as pair-wise significant in the Univariate test. | 548 **Example 1:** Include in the analysis only features identified as pair-wise significant in the Univariate test. |
| 549 | 549 |
| 550 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 550 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 551 | Input Parameter or Result | Value | | 551 | Input Parameter or Result | Value | |
| 560 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 560 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 561 | Level-name matching | use regular expressions for matching level-names | | 561 | Level-name matching | use regular expressions for matching level-names | |
| 562 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 562 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 563 | Number of features having extreme loadings | ALL | | 563 | Number of features having extreme loadings | ALL | |
| 564 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 564 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 565 | Label feat. having extreme orth. loadings | Yes | | |
| 566 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | |
| 565 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov.tsv | | 567 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov.tsv | |
| 566 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 568 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 567 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience.tsv | | 569 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience.tsv | |
| 568 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 570 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 569 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail.pdf | | 571 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail.pdf | |
| 584 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 586 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 585 | Level-name matching | use wild cards for matching level-names | | 587 | Level-name matching | use wild cards for matching level-names | |
| 586 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 588 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 587 | Number of features having extreme loadings | 5 | | 589 | Number of features having extreme loadings | 5 | |
| 588 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 590 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 591 | Label feat. having extreme orth. loadings | No | | |
| 592 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | |
| 589 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_all.tsv | | 593 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_all.tsv | |
| 590 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 594 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 591 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_all.tsv | | 595 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_all.tsv | |
| 592 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 596 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 593 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_all.pdf | | 597 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_all.pdf | |
| 608 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 612 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 609 | Level-name matching | use regular expressions for matching level-names | | 613 | Level-name matching | use regular expressions for matching level-names | |
| 610 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 614 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 611 | Number of features having extreme loadings | 0 | | 615 | Number of features having extreme loadings | 0 | |
| 612 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 616 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 617 | Label feat. having extreme orth. loadings | Yes | | |
| 618 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | |
| 613 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_global.tsv | | 619 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_global.tsv | |
| 614 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 620 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 615 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_global.tsv | | 621 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_global.tsv | |
| 616 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 622 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 617 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_global.pdf | | 623 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_global.pdf | |
| 632 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 638 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 633 | Level-name matching | use regular expressions for matching level-names | | 639 | Level-name matching | use regular expressions for matching level-names | |
| 634 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 640 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 635 | Number of features having extreme loadings | 3 | | 641 | Number of features having extreme loadings | 3 | |
| 636 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 642 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 643 | Label feat. having extreme orth. loadings | Yes | | |
| 644 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | |
| 637 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_lohi.tsv | | 645 | Output primary table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_corcov_lohi.tsv | |
| 638 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 646 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 639 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_lohi.tsv | | 647 | Output salience table | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_salience_lohi.tsv | |
| 640 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ | 648 +--------------------------------------------+----------------------------------------------------------------------------------------------------------------------------------------+ |
| 641 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_lohi.pdf | | 649 | Output figures PDF | https://raw.githubusercontent.com/HegemanLab/w4mcorcov_galaxy_wrapper/master/test-data/expected_contrast_detail_lohi.pdf | |
| 643 | 651 |
| 644 | 652 |
| 645 Trademarks | 653 Trademarks |
| 646 ---------- | 654 ---------- |
| 647 | 655 |
| 648 OPLS-DA\ :superscript:`®`, SIMCA\ :superscript:`®`, and S-PLOT\ :superscript:`®` are registered trademarks of the Umetrics company. http://umetrics.com/about-us/trademarks | 656 OPLS-DA, SIMCA, and S-PLOT are registered trademarks of the Umetrics company. http://umetrics.com/about-us/trademarks |
| 649 | 657 |
| 650 | 658 |
| 651 Release notes | 659 Release notes |
| 652 ------------- | 660 ------------- |
| 661 | |
| 662 0.98.7 | |
| 663 | |
| 664 - bug fix: handle case of a treatment level with only one sample. | |
| 653 | 665 |
| 654 0.98.6 | 666 0.98.6 |
| 655 | 667 |
| 656 - bug fix: set 'crossvalI' param (of R function 'ropls::opls') to the number of samples when the there are fewer than seven samples. | 668 - bug fix: set 'crossvalI' param (of R function 'ropls::opls') to the number of samples when the there are fewer than seven samples. |
| 657 | 669 |
| 687 <citation type="doi">10.1016/j.chemolab.2008.08.004</citation> | 699 <citation type="doi">10.1016/j.chemolab.2008.08.004</citation> |
| 688 <!-- Rinuardo 2016 --> | 700 <!-- Rinuardo 2016 --> |
| 689 <citation type="doi">10.3389/fmolb.2016.00026</citation> | 701 <citation type="doi">10.3389/fmolb.2016.00026</citation> |
| 690 <!-- Sun_2016 Urinary Biomarkers for adolescent idiopathic scoliosis --> | 702 <!-- Sun_2016 Urinary Biomarkers for adolescent idiopathic scoliosis --> |
| 691 <citation type="doi">10.1038/srep22274</citation> | 703 <citation type="doi">10.1038/srep22274</citation> |
| 692 <!-- Th_venot_2015 Urinary metabolome statistics --> | 704 <!-- Thevenot_2015 Urinary metabolome statistics --> |
| 693 <citation type="doi">10.1021/acs.jproteome.5b00354</citation> | 705 <citation type="doi">10.1021/acs.jproteome.5b00354</citation> |
| 694 <!-- ropls package --> | 706 <!-- ropls package --> |
| 695 <citation type="bibtex"><![CDATA[ | 707 <citation type="bibtex"><![CDATA[ |
| 696 @incollection{Thevenot_ropls_2017, | 708 @incollection{Thevenot_ropls_2017, |
| 697 author = {Th{\'{e}}venot, Etienne A.}, | 709 author = {Th{\'{e}}venot, Etienne A.}, |