search

KaiAragaki / mop

A broom-like interface for lab data
https://kaiaragaki.github.io/mop/
Other
1 stars 0 forks source link

Make a pcr object #1

Closed KaiAragaki closed 2 years ago

KaiAragaki commented 2 years ago

Some things that can be pulled from these files:

Sample Setup

Calibration statuses and date calibration performed on Block type Chemistry (eg TAQMAN) Date of (file?) creation. Unsure if it's file creation or run creation Experiment Barcode Experiment Comment Experiment File Name Experiment Name (equivalent to extensionless-file name? Probably not always.) Experiment run end time Experiment type Instrument Name Instrument Serial Number Instrument type Passive Reference Qunatification cycle method Signal smoothing on Stage/Cycle where analysis is performed User Name (unused in my case)

Then the actual (non-meta) data:

Well (number) Well Position (ie A1, A10, B23, etc) Sample Name Sample Color (REALLY don't think this needs to be kept, but ok) Biogroup Name Biogroup Color (see above) Target Name Target Color (see above) Task (Unknown, standard, none) Reporter (ie FAM) Quencher (ie NFQ-MGB) Quantity Comments

Amplification Data

Results

KaiAragaki commented 2 years ago

I should roll in {amplify}'s pcr_tidy as a starting point, which means I can abstract it from amplify and keep things as single purpose packages.