통계용 Programming language

설치 #

OS X #

OS X에서는 Homebrew를 이용하여 설치한다.

$ brew install r
$ brew install r-gui

만일 문제가 있으면 다음 명령으로 관련 패키지들 모두 재설치.

$ brew reinstall $(brew deps r); brew reinstall r

OS X (구버전 설치) #

Homebrew에서는 최신버전만 가능하다. 구 버전은 별도의 디렉토리에 직접 컴파일 해야 한다. (Homebrew로 설치된 것을 지우고 해야 함)

$ brew remove r
$ ./configure --prefix=$HOME/R --with-x=no
$ make
$ make install

CentOS 사용자 홈디렉토리에 설치 #

직접 컴파일시, 의존적인 패키지들이 있을 수 있다. 홈 디렉토리에 별도의 패키지를 설치했다면 다음 처럼 컴파일해야 한다. (libz, bzip2, liblzma, pcre, libcurl) (pcre 컴파일시 --enable-utf8 옵션을 줘야하고, bzip2 설치시 Makefile CFLAG에 -fPIC 추가) 참고정보: Building R-devel on RedHat Linux 6

$ export LD_LIBRARY_PATH=$HOME/lib:$LD_LIBRARY_PATH
$ (export CFLAGS="-I$HOME/include"; export LDFLAGS="-L$HOME/lib"; ./configure --prefix=$HOME --with-cairo --with-jpeglib --with-readline --with-tcltk --with-blas --with-lapack --enable-R-profiling --enable-R-shlib --enable-memory-profiling)

관련정보 #

• R and Python cheatsheets 2017-04-13
• The “Ten Simple Rules for Reproducible Computational Research” are easy to reach for R users 2017-01-29
• Moving from R to Python: The Libraries You Need to Know 2016-08-29: Python으로 넘어가기

Incoming Links #

[Codes] About (Code 0) #

• rpy2

Related Datasets (Dataset 1) #

• ExAC
• SEER

Related Software Applications (SoftwareApplication 2) #

• DECIPHER (software)
• Plotly

Related Articles (Article 3) #

• Data analysis
• Data science
• Granger causality
• Machine learning
• Survival analysis

Related Education Events (EducationEvent 4) #

• Data Analysis for Life Sciences
• Hanyang University/맞춤의료학세미나1

Codes Written (Code 5) #

• ASCAT
• AscatNgs
• Ballgown
• Battenberg
• Biobase
• Bioconductor
• CODEX
• ChIP-PED
• ClusterCall
• DNAcopy
• DiffBind
• GeomicMating
• NarrowPeaks
• Pathview
• adegenet
• edgeR
• ngs.plot
• rrBLUP

Related Medical Scholarly Articles (MedicalScholarlyArticle 6) #

• Allele-specific copy number profiling by next-generation DNA sequencing
• SAAS-CNV: A Joint Segmentation Approach on Aggregated and Allele Specific Signals for the Identification of Somatic Copy Number Alterations with Next-Generation Sequencing Data
• Transcript-level expression analysis of RNA-seq experiments with HISAT, StringTie and Ballgown

Related Codes (Code 7) #

• CODEX
• Conda
• CummeRbund
• GAPIT
• R/qtl
• StAMPP
• pandas

Suggested Pages #

• 0.141 Text-to-image model
• 0.101 F-statistics
• 0.083 DECIPHER
• 0.063 Anaconda
• 0.056 CBS
• 0.050 CODEX: a normalization and copy number variation detection method for whole exome sequencing
• 0.043 Kubeflow
• 0.042 Naive Bayes classifier
• 0.037 DECIPHER (database)
• 0.036 Gene-based comparative analysis of tools for estimating copy number alterations using whole-exome sequencing data
• More suggestions...