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OpenMS
pyOpenMS readthedocs documentation, additional utilities, addons, scripts, and examples.
Distributions of correct and incorrect matches Search engines assign scores to each peptide sequence that matches the theoretical spectrum. These peptide spectrum matchings are called PSMs. All peptide candidates are...
Quantitative Behavior of Mass Spectrometers To apply the theory we learnt in the last chapters of this unit to quantitative analyses with mass spectrometers, we need to think about the...
Workflow The search engine definitely plays the most important role in the peptide identification process. As illustrated below, what the search engine itself does is bascically first in silico digestion...
Peptides FDRs do not correspond to protein FDRs. Currently, large-scale studies often have dozens or hundreds of LC-MS runs that are being accumulated. Repeated measurements lead to an accumulation of...
In-vitro and in-vivo modifications Motivation Cells need to rapidly respond to external stimuli and pertubations. Changing the expression levels of a protein, e.g. by regulating transcription, translation or protein degradation...
Other advantages: - get rid of "half-manual" notebook conversion process and the notebook-branch - no updating of plots and generated pictures anymore - no "output" codeblocks necessary anymore - we...
https://github.com/sphinx-doc/sphinx/issues/7630 This issue is here to track the above issue in sphinx to see when we can have support for our new typestub files to fill/complete the API docs. Would...
- concept / why we use CTD? - example template - more advanced example e.g. using retention time prediction
I dont like this urlretrieve idea to master at all. Data and code will inevitably diverge. And binder notebooks are duplicating files, spending ages to download + are very hard...