FAQs
Glossary - CNV: copy number variant, gwCNV: genome-wide CNV, GE: genome editing, SNV: single-nucleotide variant
- If I run a custom panel using a subset of the amplicons in the Tapestri Genome-Wide CNV Panel, can I use the Genome Integrity pipeline to analyze my data?
- Are there any limitations when measuring CNVs in genome-edited cells?
- How are the read counts normalized to estimate ploidy?
- Do we have any tools to analyze the h5 file from the Genome Integrity pipeline?
- Does the Genome Integrity pipeline go through QC checks initially?
- Can the Genome Integrity pipeline detect translocations?
- What are the necessary input files of the Genome Integrity pipeline?
- What is the resolution for the Genome Integrity pipeline?
- What is the sequencing depth needed for the Genome Integrity assay?
- What percentage of a sample’s genome needs to be diploid for accuracy? Is there a limit to the number of CNVs in my sample for the algorithm to be accurate?
- What are the considerations for the spike-in cell population for CNV detection?
- Can the Genome Integrity pipeline distinguish between copy-neutral loss of heterozygosity (CNLOH) and loss of heterozygosity (LOH) events?
- Does the Genome Integrity pipeline define integer ploidy states?
- Can the Genome Integrity pipeline detect whole genome CNV events (for example: tetraploidy versus diploidy)?
- What are the CNV performance specs of the Genome Integrity pipeline and what parameters can affect these metrics?
- How does the Genome Integrity algorithm work?
- Can I analyze the genome integrity of genome-edited cells?
- How do I co-analyze other targets with the amplicons in the Tapestri Genome-Wide CNV panel?
- What regions of the human genome does the Genome-Wide CNV Panel cover?