Biostrings
This package is for version 2.10 of Bioconductor;
for the stable, up-to-date release version, see
Biostrings.
String objects representing biological sequences, and matching algorithms
Bioconductor version: 2.10
Memory efficient string containers, string matching algorithms, and other utilities, for fast manipulation of large biological sequences or sets of sequences.
Author: H. Pages, P. Aboyoun, R. Gentleman, and S. DebRoy
Maintainer: H. Pages <hpages at fhcrc.org>
Citation (from within R,
enter citation("Biostrings")):
Installation
To install this package, start R and enter:
## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("Biostrings")
Documentation
To view documentation for the version of this package installed
in your system, start R and enter:
browseVignettes("Biostrings")
PDF
A short presentation of the basic classes defined in Biostrings 2
PDF
Handling probe sequence information
PDF
Pairwise Sequence Alignments
Details
Version
2.24.1
In Bioconductor since
BioC 1.6 (R-2.1) or earlier (> 11 years)
License
Artistic-2.0
Suggests
BSgenome(>= 1.13.14),
BSgenome.Celegans.UCSC.ce2(>= 1.3.11),
BSgenome.Dmelanogaster.UCSC.dm3(>= 1.3.11),
drosophila2probe,
hgu95av2probe,
hgu133aprobe,
GenomicFeatures(>= 1.3.14),
hgu95av2cdf,
affy,
affydata(>= 1.11.5),
RUnit
SystemRequirements
Depends On Me
altcdfenvs,
BRAIN,
BSgenome,
ChIPpeakAnno,
ChIPsim,
DECIPHER,
deepSNV,
easyRNASeq,
GeneRegionScan,
harbChIP,
methVisual,
oneChannelGUI,
pd.ag,
qrqc,
R453Plus1Toolbox,
REDseq,
rGADEM,
Rsamtools,
seqbias,
ShortRead
Imports Me
AffyCompatible,
ArrayExpressHTS,
BCRANK,
BioSeqClass,
biovizBase,
charm,
ChIPpeakAnno,
ChIPseqR,
ChIPsim,
DECIPHER,
gcrma,
GeneRegionScan,
GenomicFeatures,
genoset,
girafe,
gwascat,
HiTC,
MEDIPS,
MEDME,
methVisual,
microRNA,
motifRG,
oligo,
oligoClasses,
OTUbase,
pd.081229.hg18.promoter.medip.hx1,
pd.2006年07月18日.hg18.refseq.promoter,
pd.2006年07月18日.mm8.refseq.promoter,
pd.2006年10月31日.rn34.refseq.promoter,
pd.aragene.1.0.st,
pd.aragene.1.1.st,
pd.ath1.121501,
pd.barley1,
pd.bovgene.1.1.st,
pd.bovine,
pd.bsubtilis,
pd.cangene.1.1.st,
pd.canine,
pd.canine.2,
pd.celegans,
pd.charm.hg18.example,
pd.chicken,
pd.citrus,
pd.cotton,
pd.cyrgene.1.1.st,
pd.cytogenetics.array,
pd.drosgenome1,
pd.drosophila.2,
pd.e.coli.2,
pd.ecoli,
pd.ecoli.asv2,
pd.equgene.1.0.st,
pd.equgene.1.1.st,
pd.feinberg.hg18.me.hx1,
pd.feinberg.mm8.me.hx1,
pd.felgene.1.1.st,
pd.genomewidesnp.5,
pd.genomewidesnp.6,
pd.hc.g110,
pd.hg.focus,
pd.hg.u133.plus.2,
pd.hg.u133a,
pd.hg.u133a.2,
pd.hg.u133a.tag,
pd.hg.u133b,
pd.hg.u219,
pd.hg.u95a,
pd.hg.u95av2,
pd.hg.u95b,
pd.hg.u95c,
pd.hg.u95d,
pd.hg.u95e,
pd.ht.hg.u133.plus.pm,
pd.ht.hg.u133a,
pd.ht.mg.430a,
pd.hu6800,
pd.huex.1.0.st.v2,
pd.hugene.1.0.st.v1,
pd.hugene.1.1.st.v1,
pd.maize,
pd.mapping250k.nsp,
pd.mapping250k.sty,
pd.mapping50k.hind240,
pd.mapping50k.xba240,
pd.medicago,
pd.mg.u74a,
pd.mg.u74av2,
pd.mg.u74b,
pd.mg.u74bv2,
pd.mg.u74c,
pd.mg.u74cv2,
pd.mirna.1.0,
pd.moe430a,
pd.moe430b,
pd.moex.1.0.st.v1,
pd.mogene.1.0.st.v1,
pd.mogene.1.1.st.v1,
pd.mouse430.2,
pd.mouse430a.2,
pd.mu11ksuba,
pd.mu11ksubb,
pd.ovigene.1.0.st,
pd.ovigene.1.1.st,
pd.pae.g1a,
pd.plasmodium.anopheles,
pd.poplar,
pd.porcine,
pd.porgene.1.0.st,
pd.porgene.1.1.st,
pd.rae230a,
pd.rae230b,
pd.raex.1.0.st.v1,
pd.ragene.1.0.st.v1,
pd.ragene.1.1.st.v1,
pd.rat230.2,
pd.rg.u34a,
pd.rg.u34b,
pd.rg.u34c,
pd.rhegene.1.1.st,
pd.rhesus,
pd.rice,
pd.rn.u34,
pd.s.aureus,
pd.soybean,
pd.soygene.1.1.st,
pd.sugar.cane,
pd.tomato,
pd.u133.x3p,
pd.vitis.vinifera,
pd.wheat,
pd.x.laevis.2,
pd.x.tropicalis,
pd.xenopus.laevis,
pd.yeast.2,
pd.yg.s98,
pd.zebgene.1.1.st,
pd.zebrafish,
pdInfoBuilder,
qrqc,
R453Plus1Toolbox,
REDseq,
rGADEM,
Rolexa,
Rsamtools,
rtracklayer,
ShortRead,
VariantAnnotation
Suggests Me
annotate,
BeadArrayUseCases,
CSAR,
exomeCopy,
GenomicFeatures,
microRNA,
minfi,
pcaGoPromoter,
procoil,
SNPlocs.Hsapiens.dbSNP.20090506,
SNPlocs.Hsapiens.dbSNP.20100427,
SNPlocs.Hsapiens.dbSNP.20101109,
SNPlocs.Hsapiens.dbSNP.20110815,
SNPlocs.Hsapiens.dbSNP.20111119
Package Archives
Follow
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package in your R session.
Mac OS X 10.6 (Snow Leopard)