Swate template Imaging computation
v1.0.3 released on 01/01/0001
145 Downloads
Template Content
Building Blocks + example values
| Input [Source Name] | Parameter [use of image] | Term Source REF (DPBO:1000135) | Term Accession Number (DPBO:1000135) | Parameter [image processing technique] | Term Source REF (ERO:0001788) | Term Accession Number (ERO:0001788) | Parameter [image processing software] | Term Source REF (DPBO:1000128) | Term Accession Number (DPBO:1000128) | Parameter [image processing software parameters] | Term Source REF (DPBO:1000130) | Term Accession Number (DPBO:1000130) | Parameter [feature extraction strategy] | Term Source REF (DPBO:1000133) | Term Accession Number (DPBO:1000133) | Parameter [feature extraction software] | Term Source REF (DPBO:1000131) | Term Accession Number (DPBO:1000131) | Parameter [data analysis] | Term Source REF (SIO:001051) | Term Accession Number (SIO:001051) | Parameter [image data analysis software] | Term Source REF (DPBO:1000129) | Term Accession Number (DPBO:1000129) | Output [Data] |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| illustrational | stacking | ImageJ | pixel size 39.5 nm; channel-specific optical transfer functions; Wiener filter 0.002 | manually | R package EBImage | robust L1 regression to estimate the effects of the cell line and compound treatment using the medpolish function | R | ||||||||||||||||||
| analytical | adaption of contrast | softWoRx | extraction of features via segmentation masks of the cytoplasm | MATLAB |