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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/Lu-Group-UKHD/SmartPhos
Confirm the following by …
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We need:
- [x] Input data from different software tools (DIA-NN, Spectronaut, MSFragger DIA, AlphaDIA, Encyclopedia, MaxDIA...)
- [x] Agree on data we are going to use
- [x] Agree on metrics we a…
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Hi there,
I'm looking for some clarification re: the output tables from running `analysis_quickstart()`that appear in the designated msdap_results timestamped folder. Apologies if this information i…
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Hi,
I would like to get phosphosite level information with the top1 method with a 0.75 cutoff, instead of the 0.9 or 0.99 used to generate the matrixes.
Has the top1 method been implemented in the …
Giu-F updated
3 months ago
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In the first iteration of the format we used snake_case for most of the columns. During my recent PR #50 I have been working to remove `.` from some of the names and use CamelCase for the columns beca…
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Hi,
is there any way to get a sitereport table analog to the LFQphospho workflow inside Fragpipe or is this not possible as quant is carried out by DIA-NN and not IonQuant
Thank you
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Dear Thang,
I've always been somewhat puzzled by the Spectronaut (SN) protein normalisation and quantifications and am quite eager to test alternative procedures. Your SN application examples, if I…
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By default, quantification output from MSFraggerDIA is a DIA-NN report.tsv file. I'm assuming the user should still specify MSFragger-DIA and not DIA-NN in the web interface. However, it is possible t…
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您好，我想请问下数据中的 "b10+1-1,H2O;2,H3PO4": 10.445889999999999”， 其中的2,H3PO4有什么含义？
HR-RH updated
11 months ago
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I am trying to direct-search HeLa raw file in DIA-NN 18. There is no searched data at the end. Below is the report.log which says
[25:57] Loading run D:\Jae_DIA_practice\1_200 ng HeLa digest (3 file…