pgb_liv\php_ms\Search\Parameters\MsgfPlusSearchParameters::setTolerableTrypticTermini

This parameter is used to apply the enzyme cleavage specificity rule when searching the database.

Specifies the minimum number of termini matching the enzyme specificity rule. For example, for trypsin, K.ACDEFGHR.C (NTT=2), G.ACDEFGHR.C (NTT=1), K.ACDEFGHI.C (NTT=1) and G.ACDEFGHR.C (NTT=0). '-ntt 2' will search for fully tryptic peptides only. By default, -ntt 2 will be used. Using -ntt 1 (or 0) will make the search significantly slower.

Signature

public function setTolerableTrypticTermini(int $identifier )

Parameters

$identifier — int


Number of tolerable (tryptic) termini

Test Coverage

Information

• Coverage: 4/4 Lines (100%)
• Tests: 2
• Passed: 2 (100%)

Tests

• [ PASSED ] — pgb_liv\php_ms\Test\Unit\MsgfPlusSearchParametersTest::testCanGetSetValidTolerableTrypticTermini
• [ PASSED ] — pgb_liv\php_ms\Test\Unit\MsgfPlusSearchParametersTest::testCanGetSetInvalidTolerableTrypticTermini