C-PMAT is an interactive interface that enables users to efficiently handle preprocessing, quality control (QC), and the generation of quantitative features for the extracellular matrix.
In the preprocessing stage, tiles are created from whole slide images along with their associated metadata. The quality control process relies on annotations to filter out tiles with artifacts, retain only those within designated regions, and ensure that each tile contains sufficient tissue for subsequent analysis.
With this guided, step-by-step workflow, users can preprocess images, extract features, and quantify aspects of the extracellular matrix.
c-pmat_v1
c-pmat is a interactive user interface, allowing user to easily preprocess, quality control (QC) and generate quantitative extracellular matrix features.
Preprocess constitutes generating tiles and the corresponding metadata from the whole slide images. Quality control is dependant on annotations and this retains the tiles free of artifact and tiles belonging to the annotated regions and ensures enough tissue on the tile is present to perform downstream analysis.
Through the usage of the step by step process, user will be able to preprocess, extract and quantify extracellular matrix features.