Conspecta

Gelyze is a web-based image analysis tool for agarose gel electrophoresis of nucleic acids. A user uploads a gel image, confirms the proposed lane positions and the ladder baseline, and a deterministic algorithm then estimates fragment size from ladder calibration and quantifies relative band intensity by densitometry. Measurement and interpretation are kept separate: the numbers come from the algorithm, and an assistive AI layer explains the resulting pattern in plain language without producing any of the values. For research use only.

PureJsImage is a free, open-source TypeScript library for decoding, inspecting, processing, and converting ordinary images and scientific rasters in Node.js and modern browsers. It provides explicit readers for microscopy, whole-slide pathology, medical imaging, electron microscopy, spectroscopy, hyperspectral, and multidimensional array formats. These include OME-TIFF, OME-Zarr, Aperio SVS, DICOM, NIfTI, MRC/CCP4, NRRD, DigitalMicrograph, EMD, ENVI, and FITS. Range-backed readers can request selected regions, tiles, volume planes, and metadata while preserving native numeric samples where supported. The default package has no runtime dependencies. Optional JPEG and PNG WebAssembly accelerators require explicit registration.

The tidyomics ecosystem is a set of packages for ’omic data analysis that work together in harmony; they share common data representations and API design, consistent with the tidyverse ecosystem. The tidyomics package is designed to make it easy to install and load core packages from the tidyomics ecosystem with a single command.

This R package supports interactive visualization of multi-channel images and segmentation masks generated by imaging mass cytometry and other highly multiplexed imaging techniques using shiny. The cytoviewer interface is divided into image-level (Composite and Channels) and cell-level visualization (Masks). It allows users to overlay individual images with segmentation masks, integrates well with SingleCellExperiment and SpatialExperiment objects for metadata visualization and supports image downloads.

Derives cells per well and suspension pipette volumes for standard 6-, 12-, 24-, 48-, 96-, and 384-well plates from a hemocytometer stock count, trypan blue viability, and target seeding confluency, with QC flags for low viability and impractical transfers. A browser calculator supports interactive planning with cell-line presets; a Python library and command-line tool submit the same parameters to the Pepkio Tools API for scripted and pipeline use. Calculator arithmetic is hosted remotely; the client transmits parameters and returns structured plate tables and shareable run identifiers.

Processes 96-well plate absorbance data through blank subtraction, regression fitting, and dilution correction to report sample concentrations with QC flags for BCA, Bradford, and ELISA workflows. A browser calculator supports interactive grid entry with CSV and PDF export; a Python library and command-line tool submit the same parameters to the Pepkio Tools API for scripted and pipeline use. Calculator arithmetic is hosted remotely; the client transmits plate layout and absorbance values and returns model comparison, per-sample concentrations, and shareable run identifiers.