How is Trekker data analyzed?

W #_msocom_1 e provide a bioinformatics pipeline that combines the single-nuclei sequencing output with the spatial barcode information from the Trekker kit to position the nuclei recovered from single-nuclei sequencing onto a spatial map. The pipeline can be downloaded from our knowledge [...]

What single-cell platforms are compatible with the Trekker kit?

C #_msocom_1 urrently, the Trekker kit is compatible with 10X Chromium Next GEM Single Cell 3’ v3.1, 10X Chromium GEM-X Single Cell 3’ v4, and BD Rhapsody Whole Transcriptome Analysis kits. Additional Trekker technology users have successfully demonstrated compatibility with other single-cell workflows, including 10X Chromium Multiome and ones from Scale Biosciences and Fluent Biosciences. Please [...]

What instrument do I need to get started with the Trekker kit?

A simple UV lamp fixture, purchased as a starter [...]

What is the Trekker kit?

The Trekker reagent kit converts single-cell data into a spatial map by spatially tagging nuclei from a tissue section before running them on a typical single-cell sequencing platform. See product page #_msocom_1 for more details. [...]

Why do cell barcodes in my Trekker data have low overlap with cell barcodes from the single-nucleus sequencing data?

The most likely cause is that a legacy Trekker tile was used for the experiment while TrekkerU_C or TrekkerU_CX was input for the 'sc_platform' value in the samplesheet.csv for pipeline analysis. To see if you are using a legacy Trekker tile, check the tile ID. If the tile ID is in the format CXXX_XXXX, this means a legacy Trekker tile was used. If so, modify the value 'sc_platform' in your [...]