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0
votes
2
replies
751
views
Stratified sample assignment for analysis
experimental-design stratification
updated 15 months ago by 84k • written 15 months ago by ▴ 210
1
vote
0
replies
298
views
Linear models with limma: coefficients not estimatable, are the others OK?
limma
15 months ago by fr ▴ 210
0
votes
0
replies
365
views
Positive TPM in genes with 0 counts from StringTie?
RNAseq stringtie
19 months ago by fr ▴ 210
0
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0
replies
2.2k
views
Comment: Comment: Whole blood single cell RNA-seq dataset?
2.8 years ago by fr ▴ 210
0
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0
replies
1.2k
views
Comment: Comment: Retrieving and interpreting specific contrast results from an interaction experi
2.8 years ago by fr ▴ 210
0
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2
replies
1.2k
views
Retrieving and interpreting specific contrast results from an interaction experiment in DESeq2
deseq2
2.8 years ago by fr ▴ 210
0
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0
replies
1.7k
views
Comment: Comment: Covariate correction which data take for downstream analysis?
2.8 years ago by fr ▴ 210
1
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0
replies
1.9k
views
Comment: Comment: Single-stranded RNA-seq: strandedness of samples
3.1 years ago by fr ▴ 210
4
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4
replies
1.9k
views
Single-stranded RNA-seq: strandedness of samples
rnaseq
3.1 years ago by fr ▴ 210
0
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0
replies
1.9k
views
Comment: Comment: Single-stranded RNA-seq: strandedness of samples
3.1 years ago by fr ▴ 210
0
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0
replies
27k
views
Comment: Comment: how to plot multi pheatmap into one figure
3.3 years ago by fr ▴ 210
0
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0
replies
1.8k
views
Comment: Comment: limma: extracting coefficients for complex models
3.3 years ago by fr ▴ 210
0
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0
replies
781
views
limma: extracting coefficients and design matrix?
limma glm
updated 3.3 years ago by 21k • written 3.3 years ago by ▴ 210
0
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0
replies
1.8k
views
Comment: Comment: limma: extracting coefficients for complex models
3.3 years ago by fr ▴ 210
1
vote
3
replies
1.8k
views
limma: extracting coefficients for complex models
limma r
3.3 years ago by fr ▴ 210
0
votes
1
reply
1.6k
views
Benchmarking DESeq / EdgeR / LIMMA vs Lasso vs RF
deseq edger limma lasso RF
updated 3.8 years ago by 20 • written 3.9 years ago by ▴ 210
0
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0
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1.2k
views
Comment: C: Limma contrasts and design: should it be split based on time points?
3.9 years ago by fr ▴ 210
0
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1
reply
1.2k
views
Comment: C: Limma contrasts and design: should it be split based on time points?
3.9 years ago by fr ▴ 210
0
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0
replies
993
views
Comment: C: Limma contrasts matrix drops columns and considers them as reference column
3.9 years ago by fr ▴ 210
0
votes
2
replies
993
views
Limma contrasts matrix drops columns and considers them as reference column
limma design
updated 3.9 years ago by ▴ 30 • written 3.9 years ago by ▴ 210
3
votes
4
replies
1.2k
views
Limma contrasts and design: should it be split based on time points?
limma design
3.9 years ago by fr ▴ 210
0
votes
0
replies
1.2k
views
Comment: C: R design on 2-way interaction not displaying all options
4.0 years ago by fr ▴ 210
0
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2
replies
1.2k
views
R design on 2-way interaction not displaying all options
modeling design limma deseq edger
4.0 years ago by fr ▴ 210
0
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0
replies
3.6k
views
Comment: C: limma fold change problem
4.0 years ago by fr ▴ 210
4
votes
4
replies
2.8k
views
Computing significance of overlap between two gene lists in Python
python hypergeometric fishers
updated 4.3 years ago by 20 • written 4.4 years ago by ▴ 210
0
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0
replies
2.1k
views
Comment: C: RNAseq: should I trim both 3' and 5'?
4.3 years ago by fr ▴ 210
1
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3
replies
2.1k
views
RNAseq: should I trim both 3' and 5'?
RNA-Seq
updated 4.3 years ago by 14k • written 4.3 years ago by ▴ 210
0
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1
reply
2.8k
views
Comment: C: Computing significance of overlap between two gene lists in Python
4.4 years ago by fr ▴ 210
2
votes
1
reply
1.3k
views
RNAseq: differences when shifting from 100bp to 150bp?
RNA-Seq
4.4 years ago by fr ▴ 210
0
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0
replies
7.7k
views
Comment: C: Overlay Multiple Tracks In Ucsc Browser [Quick Minimal Tutorial]
4.6 years ago by fr ▴ 210
2
votes
0
replies
2.5k
views
Homer's findPeaks: normalized Tag counts, Peak Score, and RPKMs
ChIP-Seq HOMER atac-seq
4.7 years ago by fr ▴ 210
0
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1
reply
1.3k
views
Strange output from Homer findPeaks
homer atac-seq
updated 15 months ago by 44k • written 4.8 years ago by ▴ 210
0
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0
replies
740
views
meaning of "Total subpeaks" in Homer's mergePeaks?
homer ChIP-Seq atac-seq
4.7 years ago by fr ▴ 210
4
votes
2
replies
791
views
How to export more than 1000 entries in IPA
ipa ingenuity pathway analysis
updated 4.7 years ago by 20 • written 4.8 years ago by ▴ 210
0
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1
reply
3.2k
views
Comment: C: How to view bigwig files in UCSC with windowed coverage?
4.8 years ago by fr ▴ 210
0
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1
reply
3.2k
views
Comment: C: How to view bigwig files in UCSC with windowed coverage?
4.8 years ago by fr ▴ 210
0
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1
reply
3.2k
views
Comment: C: How to view bigwig files in UCSC with windowed coverage?
4.8 years ago by fr ▴ 210
4
votes
9
replies
3.2k
views
How to view bigwig files in UCSC with windowed coverage?
ucsc atac-seq ChIP-Seq
updated 15 months ago by 44k • written 4.8 years ago by ▴ 210
0
votes
0
replies
3.2k
views
Comment: C: How to view bigwig files in UCSC
4.8 years ago by fr ▴ 210
1
vote
0
replies
4.3k
views
Comment: C: Perl script: generate pseudo-CDSs from intergenic region
updated 4.8 years ago by 44k • written 9.1 years ago by ▴ 210
2
votes
1
reply
1.6k
views
Visualizing bigwig tracks
ChIP-Seq RNA-Seq
updated 4.9 years ago by ★ 1.1k • written 4.9 years ago by ▴ 210
0
votes
1
reply
33k
views
Comment: C: EnhancedVolcano: Publication-ready volcano plots with enhanced colouring and lab
5.1 years ago by fr ▴ 210
0
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0
replies
1.5k
views
Comment: C: Homer annotatePeaks on genomic regions
5.2 years ago by fr ▴ 210
3
votes
2
replies
1.5k
views
Homer annotatePeaks on genomic regions
homer ChIP-Seq annotatepeaks
updated 5.2 years ago by ▴ 30 • written 5.2 years ago by ▴ 210
0
votes
1
reply
3.1k
views
Comment: C: How to bin my count data for the entire genome?
5.2 years ago by fr ▴ 210
0
votes
1
reply
4.8k
views
Comment: C: RNAseq: Fisher-exact test with Benjamini-Hochberg multiple-testing correction us
5.2 years ago by fr ▴ 210
0
votes
1
reply
4.8k
views
Comment: C: RNAseq: Fisher-exact test with Benjamini-Hochberg multiple-testing correction us
5.2 years ago by fr ▴ 210
7
votes
3
replies
3.1k
views
How to bin my count data for the entire genome?
ChIP-Seq next-gen sequencing genome homer
updated 5.2 years ago by ★ 2.2k • written 5.2 years ago by ▴ 210
0
votes
0
replies
2.6k
views
Comment: C: Combine .bed files and keep columns / headers
5.3 years ago by fr ▴ 210
0
votes
1
reply
2.6k
views
Comment: C: Combine .bed files and keep columns / headers
5.3 years ago by fr ▴ 210
133 results • Page 1 of 3
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