DEGexp |
DEGexp: Identifying Differentially Expressed Genes from gene expression data |
DEGexp2 |
DEGexp2: Identifying Differentially Expressed Genes from gene expression data |
DEGseq |
DEGseq: Identify Differentially Expressed Genes from RNA-seq data |
DEGseq.aln |
DEGseq.aln: Identify Differentially Expressed Genes from RNA-seq data (deal with the objects of class AlignedRead) |
GeneExpExample1000 |
GeneExpExample1000 |
GeneExpExample5000 |
GeneExpExample5000 |
getGeneExp |
getGeneExp: Count the number of reads and calculate the RPKM for each gene |
getGeneExp.aln |
getGeneExp.aln: Count the number of reads and calculate the RPKM for each gene (deal with the objects of class AlignedRead) |
kidneyChr21.bed |
kidneyChr21.bed |
kidneyChr21Bowtie |
kidneyChr21Bowtie |
liverChr21.bed |
liverChr21.bed |
liverChr21Bowtie |
liverChr21Bowtie |
readGeneExp |
readGeneExp: read gene expression values to a matrix |
refFlatChr21 |
refFlatChr21 |
samWrapper |
samWrapper: A Wrapper (with some modification) of the functions in the package samr to identify differentially expressed genes for the RNA-seq data from two groups of paired or unpaired samples. |