Today’s Topics. Computer Science Enabled by Computing : Decoding the Human Genome Upcoming Review for Final Exam. Enabled by Computers. Things we now take for granted: Possible only because of computing-- Several Examples (most mentioned before) Modern Camera Zoom Lens

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String Matching. String Matching. Problem is to find if a pattern p of length m occurs within text t of length n Simple solution: Naïve String Matching Match each position in the pattern to each position in the text t = AAAAAAAAAAAAAA p = AAAAAB AAAAAB etc.

String Matching. The problem: Input: a text T (very long string) and a pattern P (short string). Output: the index in T where a copy of P begins. Some Notations and Terminologies. |P| and |T| : the lengths of P and T. P[i] : the i-th letter of P.

String Matching. detecting the occurrence of a particular substring (pattern) in another string (text) A straightforward Solution The Knuth-Morris-Pratt Algorithm The Boyer-Moore Algorithm. Straightforward solution. Algorithm: Simple string matching

String Matching. String matching problem - prefix - suffix - automata - String-matching automata - prefix function - Knuth-Morris-Pratt algorithm. Chapter 32: String Matching.

String Matching. String matching: definition of the problem (text,pattern). depends on what we have: text or patterns. Exact matching:. The patterns ---> Data structures for the patterns. 1 pattern ---> The algorithm depends on |p| and | |.

String matching. Exact String Matching. Input: Two strings T[1…n] and P[1…m], containing symbols from alphabet . Example: = {A,C,G,T} T[1…12] = “CAGTACATCGAT” P[1..3] = “AGT” Goal: find all “shifts” 0 ≤s ≤n-m such that T[s+1…s+m] = P. Simple Algorithm. for s ← 0 to n-m

String Matching. String matching: definition of the problem (text,pattern). depends on what we have: text or patterns. Exact matching:. The patterns ---> Data structures for the patterns. 1 pattern ---> The algorithm depends on |p| and | |.

String Matching. The problem: Input: a text T (very long string) and a pattern P (short string). Output: the index in T where a copy of P begins. Some Notations and Terminologies. |P| and |T| : the lengths of P and T. P[i] : the i-th letter of P.

String Matching. Michael Tsai 2013/05/28. 問題 : 字串比對. 陣列 T[1..n] 中有一個長度為 n 的字串 陣列 P[1..m] 中有一個長度為 m 的字串 要在 T 中找 P 是否出現 P 和 T 的字串從一個字元的集合 中拿出 如 : 或 Pattern P occurs with shift s in text T (Pattern P occurs beginning at position s+1 in text T) if , for .