Update competency_questions.md

docs/competency_questions.md

@@ -6,28 +6,56 @@ As previously mentioned, VIBSO's scope is the semantic description of vibrationa
 
 ### Questions addressing one single data set
 
- * What kind of vibrational spectroscopy was performed (as detailed as possible: enhanced, resonant, stimulated, coherent, anti-Stokes...)?
-
+ * What kind of vibrational spectroscopy was performed (as detailed as possible: enhanced, resonant, stimulated, 
+   coherent, anti-Stokes...)?
  * In what context was it performed, e.g. as part of what study or investigation?
-
  * What devices were used?
-
+   * What is the software version?
+   * Whats the instrument manufacturer?
+   * What is the instrument model?
+   * What is the instrument license number?
+   * Which user ID was used to operate the instrument?
  * What were the protocol parameters & device configurations?
-
+   * What was the scan setting (e.g. range, CCD area x & y binninig)?
+   * What is the file extension of the measurement file?
+   * What is the unit of the measurement?
+   * What file output format is the measurement in?
+   * What is the types of acquisition for this measurement?
+   * What was the humidity and temperature of the collection environment? 
+   * What are the light conditions around the sample? (closed or open space)
+   * Which laser wavelength was used for the measurement?
+   * What grating was used for the spectrum acquisition/measurement?
+   * What exposure time was used during the measurement?
+   * What detector was used for the measurement and what pixel resolution does it have?
+   * What lens was used for the measurement?
+   * What was the laser power percentage at the sample?
+   * How many accumulations were used?
+   * What was the spatial resolution of the system?
+   * Did you correct for the dark spectrum of the detector? (ie noise correction from detector)
+   * What kind of filters do you use for your measurement?
+   * Which slit position was used? Standard or high confocality?
+   * Has the autofocus  been used? 
+   * Have the data been acquired with an automatic cosmic ray removal?
  * Who was involved in the assay? (identified by a PID like ORCID at best)
-
  * What was the assayed sample, including its relevant attributes (e.g. substrate, production procedure, pre-treatment)?
-
- * What is the dimensionality of the experiment (e.g. single spectra, line maps, surface maps, volume scans...)?
-
- * What kind of post-processing (e.g. smoothing, baseline subtraction, band integration, peak recognition, image reconstruction) was done?
+ * What is the dimensionality of the experiment (e.g. single spectra/static scan, line maps, surface maps, volume scans...)? 
+ * If the spectrum is a static scan, what is the center of the spectrum?
+ * What kind of preprocessing was done to the spectra?
+ * What kind of preprocessing was done on the sample?
+ * What kind of post-processing (e.g. smoothing, baseline subtraction, band integration, peak recognition, image 
+   reconstruction) was done?
+   * Do you perform correction for spectral shifts?
+   * What were the data extraction steps that have been done on the spectra?
+   * For baseline correction, what are the applied baseline correction methods?
+   * If the cosmic ray removal was applied manually, what are the applied processing steps to do the cosmic ray 
+     removal?
+ * What kind of preprocessing was done on the sample?
+ * Has the SNR been maintained for all measurements at expected levels?
+ * Were there any errors encountered during the measurement?
 
 ### Questions addressing the full database
 
 * Find me all Raman spectra of wolfram wires on a silicium substrate covering the range 600-1800 cm^-1.
-
 * Find me which is a safe range of incoming laser powers to perform Raman experiments at wavelength Z on sample XY.
-
 * Find me a suitable solvent which is compatible with sample XY, i.e. which does not have any Raman peak or band between wavenumbers W1 and W2.
-
 This list represents only a first draft and needs to be thoroughly discussed with the domain experts and the NFDI4Chem community.