Displaying 3 results from an estimated 3 matches for "countmatrix".
2017 Jun 08
1
DESeq2 pairwise compasion
...o, Pa
each with 2 biological replicate.
With two biological replicate. I want to do differential gene expression
analysis using DESeq2 so I tried these codes after reading about DESeq2:
,my aim is to do the pairwise comparison. how to make colData and design
formula.
library("DESeq2")
countMatrix = read.table("read_count.22May.2017.new.txt",header=T,sep='\t',check.names=F)
head(countMatrix)
dim(countMatrix)
[1] 57894 35
Now I am not sure how to construct a DESeqDataSet:
dds <- DESeqDataSetFromMatrix(countData = countMatrix,
colData = colData,
design = ~ conditi...
2017 Jun 21
1
getting error while trying to make dendogram based on gene expression
I am trying to make dendogram based on gene expression matrix , but getting
some error:
I
countMatrix = read.table("count.row.txt",header=T,sep='\t',check.names=F)
colnames(countMatrix)
count_matrix <- countMatrix[,-1] # remove first column
(gene names)
rownames(count_matrix) <- countMatrix[,1] #added first column gene
names as rownames)
> nonzer...
2017 Jun 22
0
Getting error in dendogram based on gene expression
Dear All,
I am trying to make dendogram based on gene expression matrix , but getting
some error:
I
countMatrix = read.table("count.row.txt",header=T,sep='\t',check.names=F)
colnames(countMatrix)
count_matrix <- countMatrix[,-1] # remove first column
(gene names)
rownames(count_matrix) <- countMatrix[,1] #added first column gene
names as rownames)
> nonzer...