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Qvality specifications

Information


Unique identifier OMICS_15889
Name Qvality
Interface Web user interface
Restrictions to use None
Input data The empirical score distribution and a corresponding N/A score distribution or only the empirical p-value distribution.
Programming languages C++
License MIT License
Computer skills Basic
Stability Stable
Maintained Yes

Maintainer


  • person_outline Lukas Kall <>

Information


Unique identifier OMICS_15889
Name Qvality
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data The empirical score distribution and a corresponding N/A score distribution or only the empirical p-value distribution.
Operating system Unix/Linux
Programming languages C++
License MIT License
Computer skills Advanced
Stability Stable
Maintained Yes

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Maintainer


  • person_outline Lukas Kall <>

Publication for Qvality

Qvality in publications

 (8)
PMCID: 5823648
PMID: 29507698
DOI: 10.18632/oncotarget.24321

[…] with the standard feature set. all psms with q-value < 0.01 were grouped together using sequence and theoretical mass, and the highest percolator svm score was used as the score for the group. qvality 2.05 [] was used for the estimation of q-value on the psm group level, psm groups were filtered by q-value < 0.01. each psm group gives rise to one peptide. proteins related […]

PMCID: 5474472
PMID: 28674527
DOI: 10.3389/fmicb.2017.01127

[…] statistical analyses were performed using primer6+ () and the r software (). adjustments for multiple testing were performed using the false discovery rate correction according to performed with qvality () unless indicated otherwise. we tested the effect of the following factors: tillage regime with conventional (ct) and reduced (rt) tillage, crop residue management with residue retention […]

PMCID: 5593115
PMID: 28604659
DOI: 10.1038/nbt.3908

[…] @93ec307) was run on a concatenated file of all 13 runs containing only the unambiguous phosphopeptides with the following parameters:, --final_statistics.emp_p --qvality.enable --qvality.generalized, --ms1_scoring.enable --uis_scoring.enable, --semi_supervised_learner.num_iter=20 --xeval.num_iter=20, --ignore.invalid_score_columns., pyprophet […]

PMCID: 5150223
PMID: 27917878
DOI: 10.1038/ncomms13476

[…] resulting mascot result files were further processed by using myproms and the estimated false discovery rate by automatically filtering the mascot score of all peptide identifications was set to 1% (qvality)., unless stated otherwise, cells were lysed in sample buffer (62.5 mm tris/hcl ph 6.0, 2% v/v sds, 10% glycerol, 40 mm dithiothreitol and 0.03% w/v phenol red). lysates were analysed […]

PMCID: 4533616
PMID: 26152888
DOI: 10.1021/acs.jproteome.5b00081

[…] the section, the specific implementation of that revised method is not theoretically sound. moreover, as we show in , in the context of our model, the revised method, which we refer to as stds-pit+qvality, still shows considerable liberal bias, which is quite close to that of the original method. therefore, the analysis we present here concentrates on the original stds-pit method., […]


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Qvality funding source(s)
This work was funded by NIH awards R01 EB007057 and P41 RR11823.

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