• 204
• 0

Is the Seeker kit compatible with Element Biosciences’ AVITI sequencer?

• 240
• 0

What is the recommended number of reads when your sample tissue does not cover the entire tile area?

• 209
• 0

How much PhiX should I spike in to my library before sequencing?

• 217
• 0

How deep should I sequence Seeker libraries?

• 71
• 0

For the Dual Indexing Primer kit, what orientation are the sequences listed in the User Guide table?

• 64
• 0

How do I recalculate sequencing depth after filtering out beads that are not covered by tissue?

• 57
• 0

How do I crop out a region of interest from the spatial embedding of my Seeker data?

• 77
• 0

How do I normalize my data using log-transformed count per million (CPM)?

• 59
• 0

What normalization method was used by the Seeker Primary Analysis Pipeline to generate the UMAP and clustering results in the HTML report?

• 61
• 0

What tool was used to generate the UMAP by the Seeker Primary Analysis Pipeline, and how many principal components were used?

• 52
• 0

What tool and algorithm were used for clustering by the Seeker Primary Analysis Pipeline?

• 75
• 0

What are the default parameters (e.g., the number of principal components used and the resolution for finding clusters) to reproduce the plots in the HTML report from the Seeker Primary Analysis Pipeline?

• 83
• 0

How do I remove the background from my Seeker data?

• 56
• 0

Once I generate my Seeker pipeline output, what can I do next to analyze my data?

• 76
• 0

Where can I find the BAM file where reads are associated with bead barcodes and/or molecular barcodes?

• 67
• 0

Why is the FORMATCLEANUP step running out of memory and failing with an error?

• 59
• 0

How do I decrease or increase the UMI threshold used to remove bead barcodes?

• 90
• 0

I am encountering the following error when executing the Seeker Primary Analysis Pipeline. What’s wrong?