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similar limma's contrast.fit function for lme (mixed effect model) object
limma limma
updated 8.7 years ago by ▴ 50 • written 17.4 years ago by ★ 1.0k
5
votes
12
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8.1k
views
Remove batch effect in small RNASeq study (SVA or others?)
RNASeq Alignment edgeR sva
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
0
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1
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8.1k
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Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
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0
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8.1k
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Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
0
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1
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8.1k
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Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
0
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1
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8.1k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
0
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0
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8.1k
views
Comment: C: Remove batch effect in small RNASeq study (SVA or others?)
updated 9.8 years ago by 51k • written 10.6 years ago by ★ 1.0k
3
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2
replies
16k
views
how to calculate gene length to be used in rpkm() in edgeR
RNASeq edgeR rpkm
updated 19 months ago by 51k • written 10.6 years ago by ★ 1.0k
0
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1
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4.6k
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Steps of removing batch effects and hidden variables
RNASeq Normalization sva RNASeq Normalization sva
updated 10.3 years ago by ▴ 330 • written 10.3 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
10.3 years ago shirley zhang ★ 1.0k
0
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6
replies
2.0k
views
SCAN.UPC for microarray and RNAseq data
RNASeq affy RNASeq affy
updated 10.4 years ago by ▴ 600 • written 10.4 years ago by ★ 1.0k
0
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0
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2.0k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.4 years ago shirley zhang ★ 1.0k
0
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1
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2.0k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.4 years ago shirley zhang ★ 1.0k
0
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1
reply
2.0k
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Comment: C: SCAN.UPC for microarray and RNAseq data
10.4 years ago shirley zhang ★ 1.0k
0
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0
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1.9k
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Answer: A: ComBat:RT-PCR Data
10.5 years ago shirley zhang ★ 1.0k
0
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0
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1.6k
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Comment: C: use Combat to adjust for hidden variables without knowing batch effect
11.4 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
11.4 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
11.4 years ago shirley zhang ★ 1.0k
0
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2
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1.7k
views
Answer: A: use Combat to adjust for hidden variables without knowing batch effect
11.4 years ago shirley zhang ★ 1.0k
0
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5
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1.7k
views
use Combat to adjust for hidden variables without knowing batch effect
sva sva
11.4 years ago shirley zhang ★ 1.0k
0
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1
reply
856
views
comBat or PCA to adjust for hidden variables in a high-throughput qPCR experiment with only 120 genes measured
Microarray Microarray
11.4 years ago shirley zhang ★ 1.0k
0
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0
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856
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Answer: A: comBat or PCA to adjust for hidden variables in a high-throughput qPCR experimen
11.4 years ago shirley zhang ★ 1.0k
0
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0
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959
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comBat or PCA to adjust for hidden variables in qPCR data
Microarray Microarray
11.4 years ago shirley zhang ★ 1.0k
0
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0
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868
views
method or package to detect genes expressed in a specific tissue comparing to other tissues
RNASeq Microarray RNASeq Microarray
11.5 years ago shirley zhang ★ 1.0k
0
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0
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1.6k
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Answer: A: where to find a list of housekeeping genes for Affy array (Gene 1.0 ST)
11.6 years ago shirley zhang ★ 1.0k
0
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6
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1.8k
views
need help for the study design of a RNA-Seq project
SNP Sequencing SNP Sequencing
11.6 years ago shirley zhang ★ 1.0k
0
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0
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1.8k
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Answer: A: need help for the study design of a RNA-Seq project
11.6 years ago shirley zhang ★ 1.0k
0
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1
reply
1.8k
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Comment: C: need help for the study design of a RNA-Seq project
11.6 years ago shirley zhang ★ 1.0k
0
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0
replies
850
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Replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
11.6 years ago shirley zhang ★ 1.0k
0
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0
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1.0k
views
replace the ensemble annotation with UCSC knownGene track in library "GenomeGraphs"
Annotation biomaRt Annotation biomaRt
11.6 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
11.8 years ago shirley zhang ★ 1.0k
0
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0
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1.6k
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Comment: C: Affymetrix data double normalisation
12.2 years ago shirley zhang ★ 1.0k
0
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1
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1.6k
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Comment: C: Affymetrix data double normalisation
12.2 years ago shirley zhang ★ 1.0k
0
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0
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1.5k
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the set of SNPs difference between Genome build 37.1 and 37.3
SNP HapMap SNP HapMap
12.2 years ago shirley zhang ★ 1.0k
0
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0
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2.7k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.3 years ago shirley zhang ★ 1.0k
0
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1
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2.7k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.3 years ago shirley zhang ★ 1.0k
0
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1
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2.7k
views
Comment: C: obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1
12.4 years ago shirley zhang ★ 1.0k
0
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7
replies
2.7k
views
obtain the chromosome position/coordinates for probes on Affymetrix Human Exon 1.0 array
Alignment probe Alignment probe
updated 12.4 years ago by 67k • written 12.4 years ago by ★ 1.0k
0
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1
reply
3.9k
views
Comment: C: SNP6 data to VCF
12.8 years ago shirley zhang ★ 1.0k
0
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0
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1.2k
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Comment: C: besides batch effects, whether adjust for specific quality metric variables (pos
12.9 years ago shirley zhang ★ 1.0k
0
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2
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1.2k
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 12.9 years ago by ★ 6.5k • written 12.9 years ago by ★ 1.0k
0
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0
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1.4k
views
objective criterion for identification of outlying arrays by pca
Network Bayesian Cancer Network Bayesian Cancer
13.1 years ago shirley zhang ★ 1.0k
0
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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 13.1 years ago by ★ 11k • written 13.1 years ago by ★ 1.0k
0
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0
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1.5k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.1 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.5k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.1 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.5k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.1 years ago shirley zhang ★ 1.0k
0
votes
1
reply
1.5k
views
Comment: C: where to get chr_rpts file for dbSNP human 36.3 assembly
13.1 years ago shirley zhang ★ 1.0k
0
votes
7
replies
1.5k
views
where to get chr_rpts file for dbSNP human 36.3 assembly
updated 13.1 years ago by 16k • written 13.1 years ago by ★ 1.0k
0
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0
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3.2k
views
Comment: C: get chr position for a batch of human SNPs
13.2 years ago shirley zhang ★ 1.0k
0
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0
replies
3.2k
views
Comment: C: get chr position for a batch of human SNPs
13.2 years ago shirley zhang ★ 1.0k
102 results • Page 1 of 3
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