HOME  ›   pipelines
If your question is not answered here, please email us at:  ${email.software}

10x Genomics
Visium Spatial Gene Expression

Aggregated Web Summary

Table of Contents

The spaceranger aggr pipelines output a summary HTML file named web_summary.html that contains summary metrics and automated secondary analysis results. Any alerts issued by the pipeline are displayed at the top of the page, such as an indication that results or sequencing data are out-of-spec. Further information about alerts is provided in the troubleshooting documentation.

Summary view

The summary metrics of an aggr run describe various characteristics about the aggregation process such as how many spots have been retained in the aggregated data.

Gene Expression view

This view for spaceranger aggr provides two main outputs: