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2
votes
2
replies
2.0k
views
How to quantify positive and negative correlated genes from gene expression data?
R correlation gene filtering gene-expression
4.7 years ago by Jurat Shahidin ▴ 100
5
votes
6
replies
2.1k
views
Any way to clustering mixed data types in microarray data and render them with 3D scatter plot in R?
R microarray clustering scatter-plot
4.8 years ago by Jurat Shahidin ▴ 100
7
votes
8
replies
1.9k
views
what is the strategy to set threshold value for filtering gene expression matrix?
gene-expression filtering
4.8 years ago by Jurat Shahidin ▴ 100
4
votes
17
replies
2.8k
views
Any strategy to find out the reason of having unusual Coefficient of Variation (CV) for gene expression data?
microarray gene-expression CV error
4.8 years ago by Jurat Shahidin ▴ 100
7
votes
16
replies
2.4k
views
How to correctly filer out gene expression matrix by measuring Pearson correlation coefficients?
gene-expression limma microarray
4.8 years ago by Jurat Shahidin ▴ 100
7
votes
12
replies
3.1k
views
How to filter out probsets and genes from Affymetrix microarray expression data matrix?
affymetrix microarray gene annotation
updated 4.8 years ago by 87k • written 4.8 years ago by ▴ 100
12
votes
9
replies
17k
views
Any alternative (free, open source tool) for Geneious software for phylogenetic analysis?
ngs sequencing Geneious phylogenetic analysis
updated 6.5 years ago by ▴ 290 • written 6.5 years ago by ▴ 100
3
votes
2
replies
1.5k
views
How to make conditional duplicate removal for list of peak file?
r ChIP-Seq sequencing peak
updated 7.3 years ago by 35k • written 7.3 years ago by ▴ 100
6
votes
11
replies
2.4k
views
How to edit large bed files in order to keep peaks in particular chromosome ?
R ChIP-Seq genome peak encode
updated 7.4 years ago by 35k • written 7.4 years ago by ▴ 100
3
votes
9
replies
2.0k
views
Any way to identify list of bed file with complicated pattern?
ChIP-Seq r bed sequencing
7.4 years ago by Jurat Shahidin ▴ 100
14
votes
23
replies
2.7k
views
How to efficiently reuse and optimize same code block in wrapper function?
R s4 sequence
updated 7.4 years ago by 5.7k • written 7.4 years ago by ▴ 100
10
votes
6
replies
2.4k
views
Any way to merge peak overlap hit table more efficiently ?
R peak iranges sequencing ChIP-Seq
7.4 years ago by Jurat Shahidin ▴ 100
3
votes
2
replies
1.7k
views
How to facilitate the performance of overlap for GRanges objects (verifiable example is given)?
r GRanges overlap performance function
7.8 years ago by Jurat Shahidin ▴ 100
4
votes
4
replies
1.6k
views
Any paper or journal review about repeated multiple testing for ChIP-seq replicates?
multiple testing ChIP-Seq paper repeated test
7.8 years ago by Jurat Shahidin ▴ 100
6
votes
8
replies
2.7k
views
How to obtain chi-square statistics for overlaps of three GRanges objects by pair-wise?
R chi-square overlap DataFrame
updated 7.8 years ago by 28k • written 7.8 years ago by ▴ 100
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