Abstract: Modifications to both hardware and enzymatic reactions used in single cell analyses such as but not limited to Seq-well that enable significant increases in the yield of transcripts per cell, portability and ease of use, increased scalability of the assay, and linkage of transcript information to other measurements made in the picowell arrays are disclosed.

Abstract: The invention includes methods for enriching for T cell receptor- or B cell receptor-encoding transcripts from a single cell RNA sequencing library, (ii) sequencing T cell receptor- or B cell receptor-encoding transcripts from a single cell RNA sequencing library, and (iii) targeted tagmentation of T cell receptor- or B cell receptor-encoding transcripts.

Abstract: The invention includes methods for enriching for T cell receptor- or B cell receptor-encoding transcripts from a single cell RNA sequencing library, (ii) sequencing T cell receptor- or B cell receptor-encoding transcripts from a single cell RNA sequencing library, and (iii) targeted tagmentation of T cell receptor- or B cell receptor-encoding transcripts.

Abstract: This disclosure describes improvements to both hardware and enzymatic reactions used in single cell analyses such as but not limited to Seq-well that enable significant increases in the yield of transcripts per cell, improved portability and ease of use, increased scalability of the assay, and linkage of transcript information to other measurements made in the picowell arrays.

Abstract: A system for providing fully automated image segmentation and quality control of a protein array with no human interaction is presented. The system includes a memory and a processor configured by the memory. The processor is configured to receive an image file of the protein array, to geometrically distinguish a first block within the image, register a nominal location of the first block to the image by assigning a geometric code identifying the first block, draw a plurality of grid line on the array to delineate the first block from a second block, iteratively cluster a sub image for each feature in the delineated blocks to define a foreground area and a background area, identify pixels containing an artifact for each feature, and extract and return the signal intensity, variance, and quality of background and foreground pixels in each feature.