phiX174Phage(Biostrings)
phiX174Phage()所属R语言包：Biostrings
Versions of bacteriophage phiX174 complete genome and sample short reads
噬菌体phiX174完整的基因组和样品的版本短读
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Six versions of the complete genome for bacteriophage φ X174 as well as a small number of Solexa short reads, qualities associated with those short reads, and counts for the number times those short reads occurred.
六个版本为完整的基因组噬菌体φX174以及少数公司Solexa短的读取，与那些短期读取相关的素质，并为那些短的读取发生时间计数。
Details
详情----------Details----------
The phiX174Phage object is a DNAStringSet containing the following six naturally occurring versions of the bacteriophage φ X174 genome cited in Smith et al.:
phiX174Phage对象是DNAStringSet包含以下六个自然发生的噬菌体史密斯等人φX174基因组的专利版本。
Genbank: The version of the genome from GenBank (NC\_001422.1, GI:9626372).
序列的基因组序列（GenBank：9626372数控\ _001422.1，GI）的版本。
RF70s: A preparation of φ X double-stranded replicative form (RF) of DNA
RF70s：φX双链复制的形式（RF）DNA的制备
SS78: A preparation of φ X virion single-stranded DNA from 1978.
SS78：从1978年的φX病毒颗粒的单链DNA的准备。
Bull: The sequence of wild-type φ X used by Bull et al.
牛市：野生型序列φX牛等。
G'97: The φ X replicative form (RF) of DNA from Bull et al.
G97：φX复制牛等的DNA（RF）的形式。
NEB'03: A φ X replicative form (RF) of DNA from New England BioLabs (NEB).
NEB03：φX复制DNA（RF）的形式从New England Biolabs公司（NEB）。
The srPhiX174 object is a DNAStringSet containing short reads from a Solexa machine.
srPhiX174对象是一个DNAStringSet含有短，从公司Solexa机器读取。
The quPhiX174 object is a BStringSet containing Solexa quality scores associated with srPhiX174.
quPhiX174对象是BStringSet包含公司SolexasrPhiX174相关的质量分数。
The wtPhiX174 object is an integer vector containing counts associated with srPhiX174.
wtPhiX174对象是一个整数向量含有srPhiX174相关罪名。
参考文献----------References----------
(1997) Genetics 147, 1497-1507.
"Generating a synthetic genome by whole genome assembly: {phi}X174 bacteriophage from synthetic oligonucleotides". Proceedings of the National Academy of Sciences 100 (26): 15440-15445. doi:10.1073/pnas.2237126100.
举例----------Examples----------
data(phiX174Phage)
nchar(phiX174Phage)
genBankPhage <- phiX174Phage[[1]]
genBankSubstring <- substring(genBankPhage, 2793-34, 2811+34)
data(srPhiX174)
srPhiX174
quPhiX174
summary(wtPhiX174)
alignPhiX174 <-
pairwiseAlignment(srPhiX174, genBankSubstring,
patternQuality = SolexaQuality(quPhiX174),
subjectQuality = SolexaQuality(99L),
type = "global-local")
summary(alignPhiX174, weight = wtPhiX174)
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注：
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发表于 2012-2-25 13:48:52
