Cell counting is an indispensable and essential problem because it directly affects the efficiency of many cell-based gene expression systems like Baculovirus Expression Vector System (BVES). Traditionally, this task is usually performed by microscopic-based counting. For example, the Neubauer, Burker and Fuchs-Rosenthal chambers are well known methods for counting cells in different cell concentration of interest. However, all of these methods have to be manually manipulated and therefore are prone to cause errors for the same person or different persons. Furthermore, most of them require frequent repetitions for validations.
Allows users to detect and count fluorescent signals in microscopy images of cells. Blob Finder is a free software that performs two types of analysis: (i) an average count, for quantifying the number of nuclei and signals in an image; (ii) and a single cell analysis, that assigns each signal to the closest cell and get a signal count for each cell in the image. It also performs on-z_stacks of the cell with a maximum projection to project the image data into a 2D image.
Detects the basic components in an Immunohistochemistry (IHC) image. IHC Toolbox was developed using a semi-automatic scheme that is suitable for different kinds of IHC image analysis. The software includes functions for semi-automatic color selection, automatic statistical color detection, automatic nuclei segmentation and automatic gland detection. It allows users to save and transfer their created models and parameters to different users for the reproduction of detection results in different laboratories.
Assists in cell nuclei counting and staining estimation of accurate immunohistochemical (IHC)‑stained tissue slices and tissue microarrays (TMAs). TMARKER is a toolkit suitable for cancer cell nucleus setection, segmentation, counting, and classification (malignant/benign and stained/unstained). The software uses a superpixel‑based approach for classification. One of its advantages is the reproducibility of competitive cell counts.
Permits scientific evaluation of 2D images. GSA Image Analyser is a program that allows (1) automatic surface calculation of the surfaces of all recognized objects, (2) direct length calculation of very complex and very ramified objects, and (3) object counting with an automatic count-function, a grid-intersection-count-function and two manual count-procedures.
Allows to realize automatically the colony size measurement about images of robotically arrayed microbial colonies. Spotsizer contains an interactive interface which permits to work with several image formats and different colony grid types. This tool can be used in order to make high-throughput quantitative analysis of fission yeast growth, it interface provides an accurate and a quantitative analyses of microbial growth.
Allows quantification of Drosophila egg laying. Quantifly automates egg counting after a brief training period. The software consists of a baseline algorithm with the bias correction, along with a regions of interest (ROI) labelling interface. Users are required to train the algorithm by identifying eggs within a few ROIs on several exemplar images, and, then, the software uses the model trained to detect eggs in a batch of images.
Assists in registering cell counting. Counting Aid is a standalone software which allows users to manually records cells’ locations and to display cell between infected or not infected. The application authorizes users to export the counting results as an Excel file for further analysis. It aims to provide a way for proceeding an accurate manual counting when users can’t use an automated program.