supported_file_formats
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supported_file_formats [2022/01/17 14:31] yves [Annotation formats] |
supported_file_formats [2022/01/17 21:01] yves |
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| - | ====== Whole slide images and virtual slides ===== | + | ===== Whole slide images and virtual slides ===== |
| PMA.core supports a variety of image capturing techniques and modalities. | PMA.core supports a variety of image capturing techniques and modalities. | ||
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| Because a picture says more than a thousand words, oftentimes slides get annotated. Here are some examples: | Because a picture says more than a thousand words, oftentimes slides get annotated. Here are some examples: | ||
| - | * An instructors wants to get a student's attention to a particular area on a slide by drawing arrows in various colors, possibly labeling them | + | * An instructor wants to get a student's attention to a particular area on a slide by drawing arrows in various colors, possibly labeling them |
| * A [[https://en.wikipedia.org/wiki/Contract_research_organization|CRO]] has its pathologists annotate slides for specific types of tissue like necrotic or tumor tissue. The pathologists do this according to a pre-determined color scheme | * A [[https://en.wikipedia.org/wiki/Contract_research_organization|CRO]] has its pathologists annotate slides for specific types of tissue like necrotic or tumor tissue. The pathologists do this according to a pre-determined color scheme | ||
| * A pharma company employs various types of image analysis tools ([[https://en.wikipedia.org/wiki/Machine_learning|AI/ML/DL]]; all of these tools produce annotation layers that need to be integrated for further study and comparison | * A pharma company employs various types of image analysis tools ([[https://en.wikipedia.org/wiki/Machine_learning|AI/ML/DL]]; all of these tools produce annotation layers that need to be integrated for further study and comparison | ||
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| ======= Forms and meta-data ======= | ======= Forms and meta-data ======= | ||
| + | Synopic reporting a great way to structure information that was previously largely unstructured. | ||
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| + | Here's a example: instead of letting a pathologist write a report in which he says that the patient's tissue shows signs of abnormally proliferating cell groups, you let him or her fill out a form with a checkbox for "TumorTissuePresent". | ||
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| + | PMA.core supports this kind of data capture and the ability to generate forms. For more information, see the [[forms|specific section on the subject in this wiki]]. | ||
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| + | Of course PMA.core isn't the only tool in the world that can do this. We acknowledge that by providing various options to integrate external meta-data into PMA.core as well. For more information on that subject, we refer to [[https://realdata.pathomation.com/how-to-handle-slide-meta-data/|our blog article]]. | ||
| ======= Miscellaneous ======= | ======= Miscellaneous ======= | ||
| ===== Microsoft Excel and CSV ===== | ===== Microsoft Excel and CSV ===== | ||
| + | {{::export_to_excel_2.png?200 |}}In PMA.core, much information is presented in the form of a list: users, slides, forms... | ||
| + | |||
| + | No matter how extended we make these list interfaces however, there's going to be a time where you think "well, if I only could re-format it like _this_, of if I could just send it off to _that_ lady... | ||
| + | |||
| + | Most views in PMA.core therefore have an Excel export button in the top-right corner that allow you to export the current data as list. Go ahead and try it, and if you don't find what you're looking for, [[let us know|https://www.pathomation.com/contact]] so we can incorporate it in the next version (no promises; we'll still have to evaluate the extend to which your request would be a useful feature to have for our entire user base). | ||
| ===== Supported Codecs for WSI ===== | ===== Supported Codecs for WSI ===== | ||
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| * RLE | * RLE | ||
| + | More and up-to-date information on how this applies to specific file formats can be found at [[https://www.pathomation.com/formats|our website]]. | ||
supported_file_formats.txt ยท Last modified: 2022/02/11 17:41 by yves
