Data Preparation

Author: SeekGene

Time: 2 min

Words: 374 words

Updated: 2026-03-30

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SeekSpace™ Tools

Demo Data Download

Dataset 1

- Chemistry: SeekSpace® Single Cell Spatial Transcriptome-seq Kit V1.1 (DDVA).
- Species: Mus musculus.
- Tissue: Ovary.
- Chip ID: 2P241018012A2.
- MD5 checksum: 35663411550cfdcd1b99fcd269b66bbc.

wget Download

wget -c -O WTHA5.tar "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/demodata/space/WTHA5.tar"
# decompress
tar xf WTHA5.tar

curl Download

curl -C - -o WTHA5.tar "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/demodata/space/WTHA5.tar"
# decompress
tar xf WTHA5.tar

Dataset 2

- Chemistry: SeekSpace® Single Cell Spatial Transcriptome-seq Kit V1.0 (DDVS).
- Species: Mus musculus.
- Tissue: Brain.
- Chip ID: 2P231224030A4.
- MD5 checksum: 208efa2d39d5190abec986e9b25aa685.

wget Download

wget -c -O demo.tar "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/demodata/space/demo.tar"
# decompress
tar xf demo.tar

curl Download

curl -C - -o demo.tar "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/demodata/space/demo.tar"
# decompress
tar xf demo.tar

Spatial Barcode File Download (HDMI FASTQ)

HDMI FASTQ Files (Chip-Specific Spatial Barcodes; Required)

Each capture area on a SeekSpace spatial chip contains unique spatial barcode reference data, which is stored in the format of FASTQ files. These files define the precise spatial coordinates required to accurately map sequencing data back to the original tissue section.

To ensure the accuracy of spatial analysis, users must download the corresponding FASTQ files matching their specific Chip ID and Capture Area ID prior to downstream analysis. If you are unsure of your Chip ID, please refer to the label on the physical chip or contact technical support.

Download Link

Reference Genome Links

Download-human-reference-GRCh38 - MD5: 75752934440590827289569e90099408
Download-mouse-reference-GRCm38 - MD5: c784f479d0124238e23547477340b080

wget Download

wget -c -O mm10.tar.gz "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/reference/mm10.tar.gz"
# decompress
tar -zxvf mm10.tar.gz

curl Download

curl -C - -o mm10.tar.gz "https://seekgene-public.oss-cn-beijing.aliyuncs.com/software/data/reference/mm10.tar.gz"
# decompress
tar -zxvf mm10.tar.gz

For reference genome construction, please refer to How to Build a Reference Genome?.