rDNAse: Generating Various Numerical Representation Schemes of DNA Sequences

Comprehensive toolkit for generating various numerical representation schemes of DNA sequence. The descriptors and similarity scores included are extensively used in bioinformatics and chemogenomics.

AuthorMin-feng Zhu <wind2zhu@163.com>, Jie Dong <biomed@csu.edu.cn>, Dong-sheng Cao <oriental-cds@163.com>
Date of publication2016-07-14 07:18:52
MaintainerMin-feng Zhu <wind2zhu@163.com>
LicenseGPL (>= 2)
Version1.1-1
https://github.com/wind22zhu/rDNAse

View on CRAN

Functions

diversity Man page
dnacheck Man page
extrDAC Man page
extrDACC Man page
extrDCC Man page
extrPseDNC Man page
extrPseKNC Man page
extrTAC Man page
extrTACC Man page
extrTCC Man page
getGenbank Man page
id_x_s Man page
IncDiv Man page
kmer Man page
make_idkmer_vec Man page
make_kmer_index Man page
parGOSim Man page
parSeqSim Man page
readFASTA Man page
revchars Man page
twoGOSim Man page
twoSeqSim Man page

Files

rDNAse
rDNAse/inst
rDNAse/inst/dnaseq
rDNAse/inst/dnaseq/H_sapiens_pos.fasta
rDNAse/inst/dnaseq/coldspots.fasta
rDNAse/inst/dnaseq/neg.fasta
rDNAse/inst/dnaseq/hotspots.fasta
rDNAse/inst/dnaseq/non-hs.fasta
rDNAse/inst/dnaseq/hs.fasta
rDNAse/inst/dnaseq/H_sapiens_neg.fasta
rDNAse/inst/dnaseq/pos.fasta
rDNAse/inst/sysdata
rDNAse/inst/sysdata/12_trinucleotide_physicochemical_indices.csv
rDNAse/inst/sysdata/6_dinucleotide_physicochemical_indices.csv
rDNAse/inst/sysdata/38_dinucleotide_physicochemical_indices.csv
rDNAse/inst/doc
rDNAse/inst/doc/rDNAse.Rnw
rDNAse/inst/doc/rDNAse.pdf
rDNAse/inst/doc/rDNAse.R
rDNAse/NAMESPACE
rDNAse/R
rDNAse/R/extrPseKNC.R rDNAse/R/extrPseDNC.R rDNAse/R/extrDCC.R rDNAse/R/extrDACC.R rDNAse/R/extrDAC.R rDNAse/R/dnacheck.R rDNAse/R/extrTAC.R rDNAse/R/parSeqSim.R rDNAse/R/extrTACC.R rDNAse/R/extrTCC.R rDNAse/R/make_kmer_index.R rDNAse/R/IncDiv.R rDNAse/R/parGOSim.R rDNAse/R/readFASTA.R rDNAse/R/kmer.R rDNAse/R/revchars.R rDNAse/R/getGenbank.R
rDNAse/vignettes
rDNAse/vignettes/rDNAse.Rnw
rDNAse/vignettes/fig
rDNAse/vignettes/fig/roc.pdf
rDNAse/vignettes/fig/logo-panel-text.pdf
rDNAse/vignettes/rDNAse.bib
rDNAse/MD5
rDNAse/build
rDNAse/build/vignette.rds
rDNAse/DESCRIPTION
rDNAse/man
rDNAse/man/make_kmer_index.Rd rDNAse/man/parSeqSim.Rd rDNAse/man/parGOSim.Rd rDNAse/man/extrTCC.Rd rDNAse/man/make_idkmer_vec.Rd rDNAse/man/extrDCC.Rd rDNAse/man/diversity.Rd rDNAse/man/extrPseDNC.Rd rDNAse/man/extrDAC.Rd rDNAse/man/readFASTA.Rd rDNAse/man/extrDACC.Rd rDNAse/man/id_x_s.Rd rDNAse/man/getGenbank.Rd rDNAse/man/twoSeqSim.Rd rDNAse/man/dnacheck.Rd rDNAse/man/twoGOSim.Rd rDNAse/man/revchars.Rd rDNAse/man/extrTACC.Rd rDNAse/man/extrTAC.Rd rDNAse/man/extrPseKNC.Rd rDNAse/man/kmer.Rd

Questions? Problems? Suggestions? or email at ian@mutexlabs.com.

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All documentation is copyright its authors; we didn't write any of that.