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similar limma's contrast.fit function for lme (mixed effect model) object
limma limma
updated 9.1 years ago by ▴ 50 • written 17.7 years ago by ★ 1.0k
5
votes
12
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8.3k
views
Remove batch effect in small RNASeq study (SVA or others?)
RNASeq Alignment edgeR sva
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
0
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1
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8.3k
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Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
0
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0
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8.3k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
0
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1
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8.3k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
0
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1
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8.3k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
0
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0
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8.3k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 10.2 years ago by 52k • written 10.9 years ago by ★ 1.0k
3
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2
replies
17k
views
how to calculate gene length to be used in rpkm() in edgeR
RNASeq edgeR rpkm
updated 23 months ago by 52k • written 10.9 years ago by ★ 1.0k
0
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1
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4.8k
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Steps of removing batch effects and hidden variables
RNASeq Normalization sva RNASeq Normalization sva
updated 10.7 years ago by ▴ 330 • written 10.7 years ago by ★ 1.0k
0
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0
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1.1k
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compare RNASeq with Exon array data at the gene-level and exon-level
RNASeq Annotation RNASeq Annotation
10.7 years ago shirley zhang ★ 1.0k
0
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6
replies
2.1k
views
SCAN.UPC for microarray and RNAseq data
RNASeq affy RNASeq affy
updated 10.8 years ago by ▴ 600 • written 10.8 years ago by ★ 1.0k
0
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0
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2.1k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.8 years ago shirley zhang ★ 1.0k
0
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1
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2.1k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.8 years ago shirley zhang ★ 1.0k
0
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1
reply
2.1k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.8 years ago shirley zhang ★ 1.0k
0
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0
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2.0k
views
Answer: A: ComBat:RT-PCR Data
10.9 years ago shirley zhang ★ 1.0k
0
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0
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1.7k
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Comment: C: use Combat to adjust for hidden variables without knowing batch effect
11.7 years ago shirley zhang ★ 1.0k
0
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0
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1.8k
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Comment: C: use Combat to adjust for hidden variables without knowing batch effect
11.7 years ago shirley zhang ★ 1.0k
0
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0
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1.8k
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Comment: C: use Combat to adjust for hidden variables without knowing batch effect
11.7 years ago shirley zhang ★ 1.0k
0
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2
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1.8k
views
Answer: A: use Combat to adjust for hidden variables without knowing batch effect
11.7 years ago shirley zhang ★ 1.0k
0
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5
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1.8k
views
use Combat to adjust for hidden variables without knowing batch effect
sva sva
11.7 years ago shirley zhang ★ 1.0k
0
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0
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901
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Answer: A: comBat or PCA to adjust for hidden variables in a high-throughput qPCR experimen
11.7 years ago shirley zhang ★ 1.0k
0
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1
reply
901
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comBat or PCA to adjust for hidden variables in a high-throughput qPCR experiment with only 120 genes measured
Microarray Microarray
11.7 years ago shirley zhang ★ 1.0k
0
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0
replies
994
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comBat or PCA to adjust for hidden variables in qPCR data
Microarray Microarray
11.8 years ago shirley zhang ★ 1.0k
0
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0
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895
views
method or package to detect genes expressed in a specific tissue comparing to other tissues
RNASeq Microarray RNASeq Microarray
11.9 years ago shirley zhang ★ 1.0k
0
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0
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1.7k
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Answer: A: where to find a list of housekeeping genes for Affy array (Gene 1.0 ST)
12.0 years ago shirley zhang ★ 1.0k
0
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6
replies
1.9k
views
need help for the study design of a RNA-Seq project
SNP Sequencing SNP Sequencing
12.0 years ago shirley zhang ★ 1.0k
0
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0
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1.9k
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Answer: A: need help for the study design of a RNA-Seq project
12.0 years ago shirley zhang ★ 1.0k
0
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1
reply
1.9k
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Comment: C: need help for the study design of a RNA-Seq project
12.0 years ago shirley zhang ★ 1.0k
0
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0
replies
887
views
Replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
12.0 years ago shirley zhang ★ 1.0k
0
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0
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1.1k
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replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
12.0 years ago shirley zhang ★ 1.0k
0
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0
replies
1.3k
views
Answer: A: R and High performance computing - Functions for Bioconductor users with large d
12.1 years ago shirley zhang ★ 1.0k
0
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0
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1.7k
views
Comment: C: Affymetrix data double normalisation
12.5 years ago shirley zhang ★ 1.0k
0
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1
reply
1.7k
views
Comment: C: Affymetrix data double normalisation
12.5 years ago shirley zhang ★ 1.0k
0
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0
replies
1.6k
views
the set of SNPs difference between Genome build 37.1 and 37.3
SNP HapMap SNP HapMap
12.6 years ago shirley zhang ★ 1.0k
0
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0
replies
2.8k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.7 years ago shirley zhang ★ 1.0k
0
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1
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2.8k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.7 years ago shirley zhang ★ 1.0k
0
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1
reply
2.8k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.7 years ago shirley zhang ★ 1.0k
0
votes
7
replies
2.8k
views
obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1.0 array
Alignment probe Alignment probe
updated 12.7 years ago by 68k • written 12.7 years ago by ★ 1.0k
0
votes
1
reply
4.1k
views
Comment: C: SNP6 data to VCF
13.1 years ago shirley zhang ★ 1.0k
0
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0
replies
1.3k
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Comment: C: besides batch effects, whether adjust for specific quality metric variables (pos
13.3 years ago shirley zhang ★ 1.0k
0
votes
2
replies
1.3k
views
besides batch effects, whether adjust for specific quality metric variables (pos_control_mean, neg_control_mean, etc) in the analysis models
sva sva
updated 13.3 years ago by ★ 6.5k • written 13.3 years ago by ★ 1.0k
0
votes
0
replies
1.5k
views
objective criterion for identification of outlying arrays by pca
Network Bayesian Cancer Network Bayesian Cancer
13.4 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.6k
views
Does liftOver work for SNPs mapping to different chr between different builds
SNP GO Cancer SNPlocs rtracklayer SNP GO Cancer SNPlocs rtracklayer
updated 13.4 years ago by ★ 11k • written 13.4 years ago by ★ 1.0k
0
votes
0
replies
1.7k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.4 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.7k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.4 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.7k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.4 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.7k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.4 years ago shirley zhang ★ 1.0k
0
votes
7
replies
1.7k
views
where to get chr_rpts file for dbSNP human 36.3 assembly
updated 13.4 years ago by 16k • written 13.4 years ago by ★ 1.0k
0
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0
replies
3.4k
views
Comment: C: get chr position for a batch of human SNPs
13.5 years ago shirley zhang ★ 1.0k
0
votes
0
replies
3.4k
views
Comment: C: get chr position for a batch of human SNPs
13.5 years ago shirley zhang ★ 1.0k
102 results • Page 1 of 3
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