findSequenceInGenome(GeneRegionScan)
findSequenceInGenome()所属R语言包：GeneRegionScan
Find a sequence in genome
找到一个在基因组序列
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Wrapper around matchPDict that will accept a list of sequences and check if they are present in a given genome. Takes a long time to run.
matchPDict周围的包装将接受一个序列列表，检查，如果他们是在一个给定的基因组中。需要很长的时间来运行。
用法----------Usage----------
findSequenceInGenome(sequences,
genome="BSgenome.Hsapiens.UCSC.hg19", verbose=TRUE,
directions=c("matchForwardSense", "matchForwardAntisense",
"matchReverseSense", "matchReverseAntisense"))
参数----------Arguments----------
参数：sequences
vector of character strings to scan. Should only contain A, C, G and T. Will be converted to DNAString.
扫描字符串向量。应该只包含一个C，G和T将转换到DNAString。
参数：genome
character string with the name of the BSGenome in which sequences should be found. Defaults to the human genome.
字符串名称序列中应BSGenome。人类基因组的默认值。
参数：verbose
TRUE or FALSE.
TRUE或FALSE。
参数：directions
character string with elements from c("matchForwardSense", "matchForwardAntisense", "matchReverseSense", "matchReverseAntisense"). Defines which directions (complementary and reverse mirrorings) that should be scanned. Defaults to all directions.
从C元素的字符串（“matchForwardSense”，的“matchForwardAntisense”，“matchReverseSense”，“matchReverseAntisense”）。定义应扫描方向（互补性和反向mirrorings的）。四面八方的默认。
Details
详情----------Details----------
This function will take quite a while to run, so if you have a many sequences, overnight runs are recommended. BSgenome contains some alternative versions of chromosomes. They are marked with an underscore. This function automatically disregards chromosome names with an underscore, and this is known to work for the human genome. Nevertheless, check the output printed to terminal if all
此功能将需要相当一段时间运行，因此，如果你有许多序列，通宵运行。 BSgenome染色体包含一些替代版本。他们用下划线标记。此功能会自动无视染色体名以下划线，这是已知的人类基因组工作。然而，检查印刷到终端的输出，如果所有
值----------Value----------
A data frame with a row for each identified match. Columns are "entrynumber","hitposInChr","chr", and "sequence" describing, respectively: the index of the sequence match, the position in the chromosome at which it was found, which chromosome it was found on,
一个数据框，每一个确定的匹配的行。是的“entrynumber”，“hitposInChr”，“CHR”，“序”的描述，分别为：序列匹配的索引列，在它被发现在染色体上的位置，这种染色体被发现，
作者（S）----------Author(s)----------
Lasse Folkersen
参见----------See Also----------
BSgenome, matchPDict,
BSgenome，matchPDict
举例----------Examples----------
## Not run: [＃无法运行：]
#you can run this, but it takes quite a lot of time[你可以运行这个，但它需要相当大量的时间]
example<-findSequenceInGenome("CTGGCGAGCAGCGAATAATGGTTT")
## End(Not run)[＃结束（不运行）]
转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。
注：
注1：为了方便大家学习，本文档为生物统计家园网机器人LoveR翻译而成，仅供个人R语言学习参考使用，生物统计家园保留版权。
注2：由于是机器人自动翻译，难免有不准确之处，使用时仔细对照中、英文内容进行反复理解，可以帮助R语言的学习。
注3：如遇到不准确之处，请在本贴的后面进行回帖，我们会逐渐进行修订。
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发表于 2012-2-25 18:58:09
