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Hi,
I found some issues when looking at the peptide (PEP) section after the import by MzTabReader.
- retention_time is a string but should be a double
- mass_to_charge is a string but should be a doub…
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It looks like the current manuscript has some major confusion over the numbers we report for expression yields.
The Caliper GX II yields are reported by the MacroLab in "ng/ul", which actually repres…
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We all agree, that AnalysisXML is for data exchange and results reporting.
To report evidence of the results we reference or give intermediate results
(i.e. spectra, if peptides are reported; or p…
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Can't read the OWL file with the OWL API, parsed complained about a URI syntax exception in line 798 here
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Proteomic scale studies can be entered as interactions
for example cases detailed below. It is however not
quite right to add these using physical interactions as
interaction type. An alternative inte…
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Proteomic scale studies can be entered as interactions
for example cases detailed below. It is however not
quite right to add these using physical interactions as
interaction type. An alternative inte…
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Currently, ProteinQuantifier is very restrictive and bases its quantification on unique peptides only. Using all peptides, unique and shared, is clearly too lenient. This feature request suggests to m…
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We decided in Ghent to get rid of the concept of "final PSM list" and "intermediate list" - only final results are allowed to make reading easier. @germa Please remove this from the mapping file and …
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Hi I'm attempting to use the output from PeptideShaker (after a SearchGUI data search) to generate a spectral library for Data Independent Acquisition (DIA) analysis. However I am unable to convert th…
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Hi There,
I am trying to build the index for gencode transcripts but all versions of sailfish give a failure error at the end. Here's the transcripts I get when I run the index:
sailfish index -t ge…