AB1700

Filters:

• One way field filter: S/N (signal to noise ratio) < 3
  • this removes all spots that have a S/N ratio less than 3. 3 is the recommended value from ABI. You may consider changing this value.
• One way field filter: Flags > 8191
  • this removes spots that have quality issues.
• String filter: Probe_Type Not Equals .*probe.* (This is case sensitive)
  • this removes all control spots. (if you only want to remove some control spots, change the Not Equals to Equals and type the name of the Probe_Type of the spots you want to remove instead of .*probe.*)

Normalisation:

• Quantile Normalization