{"title":"MONI可以找到k-MEMs","authors":"T. Gagie","doi":"10.4230/LIPIcs.CPM.2023.26","DOIUrl":null,"url":null,"abstract":"Suppose we are asked to index a text $T [0..n - 1]$ such that, given a pattern $P [0..m - 1]$, we can quickly report the maximal substrings of $P$ that each occur in $T$ at least $k$ times. We first show how we can add $O (r \\log n)$ bits to Rossi et al.'s recent MONI index, where $r$ is the number of runs in the Burrows-Wheeler Transform of $T$, such that it supports such queries in $O (k m \\log n)$ time. We then show how, if we are given $k$ at construction time, we can reduce the query time to $O (m \\log n)$.","PeriodicalId":236737,"journal":{"name":"Annual Symposium on Combinatorial Pattern Matching","volume":"125 1","pages":"0"},"PeriodicalIF":0.0000,"publicationDate":"2022-02-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"3","resultStr":"{\"title\":\"MONI can find k-MEMs\",\"authors\":\"T. Gagie\",\"doi\":\"10.4230/LIPIcs.CPM.2023.26\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"Suppose we are asked to index a text $T [0..n - 1]$ such that, given a pattern $P [0..m - 1]$, we can quickly report the maximal substrings of $P$ that each occur in $T$ at least $k$ times. We first show how we can add $O (r \\\\log n)$ bits to Rossi et al.'s recent MONI index, where $r$ is the number of runs in the Burrows-Wheeler Transform of $T$, such that it supports such queries in $O (k m \\\\log n)$ time. We then show how, if we are given $k$ at construction time, we can reduce the query time to $O (m \\\\log n)$.\",\"PeriodicalId\":236737,\"journal\":{\"name\":\"Annual Symposium on Combinatorial Pattern Matching\",\"volume\":\"125 1\",\"pages\":\"0\"},\"PeriodicalIF\":0.0000,\"publicationDate\":\"2022-02-10\",\"publicationTypes\":\"Journal Article\",\"fieldsOfStudy\":null,\"isOpenAccess\":false,\"openAccessPdf\":\"\",\"citationCount\":\"3\",\"resultStr\":null,\"platform\":\"Semanticscholar\",\"paperid\":null,\"PeriodicalName\":\"Annual Symposium on Combinatorial Pattern Matching\",\"FirstCategoryId\":\"1085\",\"ListUrlMain\":\"https://doi.org/10.4230/LIPIcs.CPM.2023.26\",\"RegionNum\":0,\"RegionCategory\":null,\"ArticlePicture\":[],\"TitleCN\":null,\"AbstractTextCN\":null,\"PMCID\":null,\"EPubDate\":\"\",\"PubModel\":\"\",\"JCR\":\"\",\"JCRName\":\"\",\"Score\":null,\"Total\":0}","platform":"Semanticscholar","paperid":null,"PeriodicalName":"Annual Symposium on Combinatorial Pattern Matching","FirstCategoryId":"1085","ListUrlMain":"https://doi.org/10.4230/LIPIcs.CPM.2023.26","RegionNum":0,"RegionCategory":null,"ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":null,"EPubDate":"","PubModel":"","JCR":"","JCRName":"","Score":null,"Total":0}
Suppose we are asked to index a text $T [0..n - 1]$ such that, given a pattern $P [0..m - 1]$, we can quickly report the maximal substrings of $P$ that each occur in $T$ at least $k$ times. We first show how we can add $O (r \log n)$ bits to Rossi et al.'s recent MONI index, where $r$ is the number of runs in the Burrows-Wheeler Transform of $T$, such that it supports such queries in $O (k m \log n)$ time. We then show how, if we are given $k$ at construction time, we can reduce the query time to $O (m \log n)$.