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Comment: Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
6 months ago by Sib ▴ 80
0
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1
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2.3k
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Comment: Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
6 months ago by Sib ▴ 80
0
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1
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2.3k
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Comment: Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
6 months ago by Sib ▴ 80
2
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10
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2.3k
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Proper preprocessing for ML after limma, quantile normalization and log2 transformation: Is standardization still necessary?
featureselection microarray preprocessing
updated 6 months ago by ★ 30k • written 7 months ago by ▴ 80
0
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0
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2.3k
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Comment: Comment: Proper preprocessing for ML after limma, quantile normalization and log2 transfo
7 months ago by Sib ▴ 80
1
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3
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972
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Is a log2 transformation an essential step in preparing expression data for machine learning?
Machine-learning preproccessing microarray
updated 7 months ago by 45k • written 7 months ago by ▴ 80
0
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0
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972
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Comment: Comment: Is a log2 transformation an essential step in preparing expression data for mach
7 months ago by Sib ▴ 80
0
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0
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866
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Comment: Comment: Is Centering and Scaling Essential for Expression Data as Input for Machine Lear
7 months ago by Sib ▴ 80
0
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0
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866
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Comment: Comment: Is Centering and Scaling Essential for Expression Data as Input for Machine Lear
7 months ago by Sib ▴ 80
1
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3
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866
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Is Centering and Scaling Essential for Expression Data as Input for Machine Learning Algorithms?
featureselection microarray preprocessing
7 months ago by Sib ▴ 80
0
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0
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775
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miRNA-seq Analysis: Is a low percentage of assigned reads normal when using a miRBase gff file for counting
miRNA Counting RNAseq
10 months ago by Sib ▴ 80
0
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1
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1.4k
views
Comment: Comment: Should I exclude unmapped reads and proceed with the analysis for low mapped sam
21 months ago by Sib ▴ 80
2
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4
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1.4k
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Should I exclude unmapped reads and proceed with the analysis for low mapped samples, or omit them altogether?
STAR mapping RNAseq
updated 21 months ago by ★ 3.1k • written 21 months ago by ▴ 80
0
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0
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984
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Comment: Comment: Is there anything we can do when we have assignment rate below 50% in featurecou
2.4 years ago by Sib ▴ 80
0
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2
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984
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Is there anything we can do when we have assignment rate below 50% in featurecounts?
RNA-seq featurecounts
updated 2.4 years ago by 45k • written 2.4 years ago by ▴ 80
0
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0
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764
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How are the reads assigned to genes in strand-specific RNAseq libraries?
strand-specific strandness RNAseq
2.4 years ago by Sib ▴ 80
0
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1
reply
1.4k
views
Comment: Comment: What is the benefit of knowing the source of contamination when we have RNAseq d
2.5 years ago by Sib ▴ 80
1
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3
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1.4k
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What is the benefit of knowing the source of contamination when we have RNAseq data with less than 70% mapping?
alignment mapping STAR contamination RNAseq
2.5 years ago by Sib ▴ 80
0
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0
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1.7k
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Comment: Comment: Low mapping percentage
2.5 years ago by Sib ▴ 80
2
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3
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1.7k
views
Low mapping percentage
mapping STAR RNAseq
2.5 years ago by Sib ▴ 80
1
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2
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1.3k
views
Why my application works well but when I try to modularize it, it doesn't work properly ?
Shinymodule app Shinyapp Shiny module
3.0 years ago by Sib ▴ 80
0
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0
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1.3k
views
Answer: Answer: Why my application works well but when I try to modularize it, it doesn't work p
3.0 years ago by Sib ▴ 80
10
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7
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4.4k
views
How to understand logics and statistical concepts behind limma package?
R microarray DGE limma
updated 4.1 years ago by 154k • written 4.1 years ago by ▴ 80
1
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0
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4.4k
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Answer: Answer: How to understand logics and statistical concepts behind limma package?
4.1 years ago by Sib ▴ 80
0
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2
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4.4k
views
Comment: Comment: How to understand logics and statistical concepts behind limma package?
4.1 years ago by Sib ▴ 80
0
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0
replies
896
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Using machine learning methods to find a biomarker panel to diagnose a disease.
Machine-learning feature-selection training-dataset Biomarker RNAseq
4.2 years ago by Sib ▴ 80
0
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0
replies
1.3k
views
Error in ReadAffy function
ReadAffy Microarray R
4.2 years ago by Sib ▴ 80
1
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0
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5.6k
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Comment: Comment: Error in ComBat function: Error in dat[, batch == batch_level] : (subscript)
4.4 years ago by Sib ▴ 80
0
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1
reply
5.6k
views
Comment: Comment: Error in ComBat function: Error in dat[, batch == batch_level] : (subscript)
4.4 years ago by Sib ▴ 80
3
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4
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5.6k
views
Error in ComBat function: Error in dat[, batch == batch_level] : (subscript) logical subscript too long
Batch-effect microarray R
updated 19 months ago by 45k • written 4.4 years ago by ▴ 80
0
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0
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1.5k
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Comment: Comment: Is it correct to merge two raw CEL datasets and then perform quality control, ba
4.4 years ago by Sib ▴ 80
0
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2
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1.5k
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Is it correct to merge two raw CEL datasets and then perform quality control, background correction, and normalization on it?
R microarray affymetrix batch-effect quality-control
updated 19 months ago by 45k • written 4.4 years ago by ▴ 80
1
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11
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3.8k
views
Error in volcano plot drawing with R.
R
updated 5.1 years ago by ★ 8.6k • written 5.9 years ago by ▴ 80
0
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1
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2.1k
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Comment: C: Can anyone introduce me a free tool for finding upstream regulators of different
5.1 years ago by Sib ▴ 80
4
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3
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2.1k
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Can anyone introduce me a free tool for finding upstream regulators of differentially expressed genes?
upstream regulators enrichment analysis RNA-Seq
5.1 years ago by Sib ▴ 80
0
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0
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7.8k
views
Comment: C: How can I put the Rtools on PATH?
5.4 years ago by Sib ▴ 80
0
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2
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7.8k
views
How can I put the Rtools on PATH?
R
updated 5.4 years ago by 90k • written 5.4 years ago by ▴ 80
0
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0
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2.0k
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Comment: C: Is there a need for background correction and substitution of duplicates with th
5.9 years ago by Sib ▴ 80
0
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1
reply
2.0k
views
Comment: C: Is there a need for background correction and substitution of duplicates with th
5.9 years ago by Sib ▴ 80
0
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5
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2.0k
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Is there a need for background correction and substitution of duplicates with the mean when we use the getGEO function of R in microarray analysis?
R GEO Microarray analysis
5.9 years ago by Sib ▴ 80
0
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1
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3.1k
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Comment: C: In R scripts of GEO2R which line is responsible for background correction and re
5.9 years ago by Sib ▴ 80
7
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5
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3.1k
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In R scripts of GEO2R which line is responsible for background correction and replacing replicated probes with the mean?
R Differential expression analysis
5.9 years ago by Sib ▴ 80
0
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0
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4.1k
views
Comment: C: Error in plotting Enhanced Volcano plot
5.9 years ago by Sib ▴ 80
0
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1
reply
4.1k
views
Comment: C: Error in plotting Enhanced Volcano plot
5.9 years ago by Sib ▴ 80
2
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4
replies
4.1k
views
Error in plotting Enhanced Volcano plot
differential expression analysis enhanced volcano
updated 5.9 years ago by ★ 7.8k • written 5.9 years ago by ▴ 80
0
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1
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3.8k
views
Comment: C: Error in volcano plot drawing with R.
5.9 years ago by Sib ▴ 80
0
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1
reply
3.8k
views
Comment: C: Error in volcano plot drawing with R.
5.9 years ago by Sib ▴ 80
0
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0
replies
3.8k
views
Comment: C: Error in volcano plot drawing with R.
5.9 years ago by Sib ▴ 80
0
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1
reply
3.8k
views
Comment: C: Error in volcano plot drawing with R.
5.9 years ago by Sib ▴ 80
0
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0
replies
1.8k
views
Comment: C: After differential expression analysis if we use gene symbols for further analys
5.9 years ago by Sib ▴ 80
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