Is there a formula or ratio of how the txnE and txnStrength parameters should relate to the bin width? Should these always kept at default value or is there a rule of thumb for this parameter?
Quote from snakefile:
# control segmentation - higher (e.g. 0.9999999) leads to higher specificity and fewer segments
# lower (e.g. 0.99) leads to higher sensitivity and more segments
ichorCNA_txnE: 0.9999
# control segmentation - higher (e.g. 10000000) leads to higher specificity and fewer segments
# lower (e.g. 100) leads to higher sensitivity and more segments
ichorCNA_txnStrength: 500
Is there a formula or ratio of how the
txnE
andtxnStrength
parameters should relate to the bin width? Should these always kept at default value or is there a rule of thumb for this parameter?Quote from snakefile: