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pearsoncorrelation
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How to manage self loop in gene coexpression network constructed using Pearson correlation in Cor() function
rna-seq
gcn
desq2
pearsoncorrelation
5.9 years ago
aishu.jp
▴ 30
0
votes
1
reply
906
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Human genes correlation to Bacterial genes
correlation
pearsoncorrelation
rna-seq
differential gene expression
updated 4 months ago by
ATpoint
★ 4.1k • written 6.0 years ago by
saad_k6
• 0
0
votes
2
replies
1.8k
views
Cutoff for coexpressed gene pairs using Pearson/Spearman correlation
microarray
pearsoncorrelation
coexpression
spearman
updated 7.2 years ago by
James W. MacDonald
65k • written 7.2 years ago by
juls
• 0
2
votes
1
reply
1.6k
views
DiffBind affinity vs occupancy Heatmaps
diffbind
heatmap
pearsoncorrelation
updated 7.8 years ago by
Rory Stark
★ 5.2k • written 7.8 years ago by
shubhibartaria
▴ 10
4
votes
12
replies
4.7k
views
remove batch effect using limma
limma
rnaseq
batch effect
pearsoncorrelation
updated 8.2 years ago by
Aaron Lun
★ 28k • written 8.2 years ago by
elpsakkas
• 0
1
vote
2
replies
10k
views
Use of various distance measures and clustering methods in heatmap creation
gplots
heatmap.2
bioconductor
pearsoncorrelation
average
8.8 years ago
svlachavas
▴ 830
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Comment: Get genomic coordinates of CpGs sites (chromosomes, genomic position)
by
Yveto
• 0
Thank for your response. It is Illumina 450 K. I use this code ```{r } library(IlluminaHumanMethylation450kanno.ilmn12.hg19) annotat…
Answer: More regions in union when increasing DBA$config$mergeOverlap
by
Rory Stark
★ 5.2k
I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
Michael Love
41k
But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…
Comment: log2FoldChange value is way too different when compared with counts(dds)
by
HAK
• 0
Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…
Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call
by
ATpoint
★ 4.1k
Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…
Votes
Bioconductor 3.19 is Released!
Answer: DEseq2 coefficient
SPIA plotP giving error
Answer: Fold change calculation in Diffbind vs. DESEQ2?
C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB
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