DONE What is the code publishing situation like?
-
Note taken on [2025-12-08 Mon 09:34]
So, the code won't be published unless we are asked for it. I think we should probably publish the nextflow pipeline, but it won't be strictly reproducible. - How reproducible does the analysis need to be?
DONE How were the .fa files for SPAMO created?
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Note taken on [2025-12-08 Mon 09:34]
no longer needed
DONE How were the protein atlas files filtered for SPI1?
Manually
DONE Where is the PCA code?
ANSWER
The PCA code is in manuscript/Figures/PCA
DONE Where did Copy of PU1MARIOanalysissummarystatisticsMSS.xlsx come from?
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Note taken on [2025-12-08 Mon 09:33]
This is no longer needed
What is it for?
DONE Where does samplesheet.csv come from?
Are they manually generated?
- QC spreadsheet
ANSWER
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Note taken on [2025-06-02 Mon 19:36]
They are manually generated
Molly likely knows.
- Shreeja