a little plan for the app.

openSMAPPjs.md

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+# openSMAPPjs
+My little SMAPP should be based on javascript and work without a backend server. The backend is only used to persist data and send it to the lab.
+
+It should be possible to use the app as is - without the backend side. 
+
+For this data is stored in the local-storage of the browser. 
+
+## Configure The App
++ create the database
+
+### Sample Preparation Protocol
++ settling time (default 15 s)
++ dilution (main default 1:5 and bacterial default 1:500)
++ sample Volume (1 mL)
++ shaking time (30x shakes in 30s)
+
+### Microscope Camera Setup
++ width / height of FoV [um]
++ objective magnification (default 40x)
++ eypiece Number 
++ size of slide width x height
+
+## Sample Intake Form
++ type (compost)
++ place
++ date + time of taking the sample
++ notes (when was the last rain event)
+
+
+## Sample Preparation
+After the microscope and the preparation protocol is defined we can start taking in samples. 
+
+
+### Sample Preparation
++ dilution (main 1:5)
++ shaking time (30x shakes in 30s)
++ settling time (15 s)
+
+### Slide Preparation
++ size of slide
++ sample size [uL]
+
+## Sample Analysis
+The analysis consists of a Nematode scan the main assessment for protozoa and filamentous organisms and a bacteria count.
+
+### Nematode Scan
+Take multiple pictures of each Nematode and calssify to functional group. 
+Bacterial- / Fungal- / Rootfeeding and Predatory Nematodes.
+
+### Main Assessment
+Take multiple pictures per FoV and count all organisms in the FoV. Mark them and store the picture and list of organisms.
+
++ as many as needed pictures per FoV. 
++ 5 or more FoV per reading. 
++ 5 or more readings. 
+
+### Bacterial Count
+For the bacterial count another dilution is used. Then bacteria are counted. 
+
+## Results Page
+From the different parts of the analysis the F:B ratio is calculated and Number of Protozoa / Fungal and Bacterial Biomass per mL of soil is calculated.