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853
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Degrees of freedom and coefficients in an edge::deSet and edge::deFit objects
edge differential gene expression timecourse interaction
5.7 years ago rubi ▴ 110
0
votes
0
replies
815
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Assessing goodness of fit of a limma model fitted to microarray data
limma microarray goodness of fit
5.7 years ago rubi ▴ 110
0
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1
reply
1.3k
views
Comment: C: Design matrix for a two-color experimental design testing for time effect on 3 t
5.7 years ago rubi ▴ 110
3
votes
8
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1.3k
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Design matrix for a two-color experimental design testing for time effect on 3 treated cell-lines, each with its own time=0 control
limma microarray design matrix twochannel
updated 5.7 years ago by 50k • written 5.7 years ago by ▴ 110
0
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1
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1.3k
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Comment: C: Design matrix for a two-color experimental design testing for time effect on 3 t
5.7 years ago rubi ▴ 110
0
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1
reply
1.3k
views
Comment: C: Design matrix for a two-color experimental design testing for time effect on 3 t
5.7 years ago rubi ▴ 110
0
votes
3
replies
1.3k
views
Low level usage of rhdf5
rhdf5
updated 6.0 years ago by ★ 6.5k • written 6.0 years ago by ▴ 110
0
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0
replies
1.3k
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Comment: C: Low level usage of rhdf5
6.0 years ago rubi ▴ 110
0
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1
reply
820
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Create a soft link in rhdf5
rhdf5 softlink
6.0 years ago rubi ▴ 110
4
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1
reply
2.3k
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Using HDF5Array writeHDF5Array for a large dgCMatrix
HDF5Array dgCMatrix
updated 6.1 years ago by ★ 28k • written 6.1 years ago by ▴ 110
3
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2
replies
3.1k
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getGEO error when trying to download a series matrix file
GEOquery getGEO
6.1 years ago rubi ▴ 110
0
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0
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3.1k
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Answer: A: getGEO error when trying to download a series matrix file
6.1 years ago rubi ▴ 110
0
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0
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2.7k
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Comment: C: Does fgsea order the stats argument?
6.1 years ago rubi ▴ 110
0
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1
reply
2.7k
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Comment: C: Does fgsea order the stats argument?
6.1 years ago rubi ▴ 110
0
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0
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1.6k
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Comment: C: Getting error using GenomicRanges::setdiff
6.7 years ago rubi ▴ 110
4
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1
reply
1.7k
views
Getting "negative length vectors are not allowed" error in BSgenome::getSeq
BSgenome getSeq
updated 6.7 years ago by 25k • written 6.7 years ago by ▴ 110
0
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1
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1.6k
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Comment: C: Getting error using GenomicRanges::setdiff
6.7 years ago rubi ▴ 110
2
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5
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1.6k
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Getting error using GenomicRanges::setdiff
GenomicRanges setdiff
updated 6.7 years ago by ★ 11k • written 6.7 years ago by ▴ 110
2
votes
1
reply
1.6k
views
Extracting UTRs from exon and CDS data
genomeintervals UTRs exons CDS GenomicRanges
updated 6.7 years ago by ★ 11k • written 6.7 years ago by ▴ 110
0
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1
reply
2.7k
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Comment: C: Does fgsea order the stats argument?
6.7 years ago rubi ▴ 110
0
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8
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2.7k
views
Does fgsea order the stats argument?
fgsea
6.8 years ago rubi ▴ 110
0
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1
reply
2.7k
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Answer: A: Does fgsea order the stats argument?
6.8 years ago rubi ▴ 110
0
votes
2
replies
2.1k
views
Exporting a GenomicRanges object as GTF/GFF file
genomicranges rtracklayer gtf gff export
6.9 years ago rubi ▴ 110
6
votes
12
replies
5.3k
views
Error in getBM of biomaRt package
biomaRt getBM
updated 7.1 years ago by • 0 • written 7.2 years ago by ▴ 110
4
votes
1
reply
988
views
Getting Internal Server Error when trying to use Gviz's IdeogramTrack
gviz IdeogramTrack
updated 7.2 years ago by ★ 1.6k • written 7.2 years ago by ▴ 110
2
votes
2
replies
1.3k
views
biomaRt's uniprot_swissprot and uniprot_sptrembl attributes
biomart getDB
updated 7.2 years ago by ★ 6.5k • written 7.2 years ago by ▴ 110
2
votes
2
replies
1.1k
views
Creating a Biostrings PDict object from amino-acid sequences
biostrings pdict
updated 7.2 years ago by 16k • written 7.2 years ago by ▴ 110
2
votes
4
replies
1.3k
views
Running time of piano's runGSA
piano runGSA runtime
updated 7.3 years ago by ▴ 70 • written 7.3 years ago by ▴ 110
0
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0
replies
1.3k
views
Comment: C: Running time of piano's runGSA
7.3 years ago rubi ▴ 110
2
votes
1
reply
1.5k
views
Direction aware fgsea test
fgsea gsea
updated 7.3 years ago by ▴ 240 • written 7.3 years ago by ▴ 110
0
votes
1
reply
847
views
Supplying ToPASeq a list of fold changes and their associated p-values
ToPASeq
updated 7.3 years ago by ▴ 10 • written 7.3 years ago by ▴ 110
0
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0
replies
3.2k
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Comment: C: Usage of Gviz's GeneRegionTrack
7.3 years ago rubi ▴ 110
1
vote
2
replies
3.2k
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Usage of Gviz's GeneRegionTrack
gviz
updated 7.3 years ago by ★ 1.6k • written 7.3 years ago by ▴ 110
0
votes
1
reply
955
views
Suppressing the gene model box in Gviz's plotTracks
Gviz plotTracks
7.3 years ago rubi ▴ 110
0
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0
replies
955
views
Answer: A: Suppressing the gene model box in Gviz's plotTracks
7.3 years ago rubi ▴ 110
4
votes
1
reply
4.6k
views
Rsubread featureCounts with strand information
Rsubread bam rnaseq
updated 7.3 years ago by ★ 28k • written 7.3 years ago by ▴ 110
1
vote
1
reply
1.1k
views
Fastest way to get the distances between pairs of graph nodes
graph rgbl dag
updated 7.4 years ago by ★ 13k • written 7.4 years ago by ▴ 110
1
vote
1
reply
1.3k
views
Obtaining Go slim terms from biomaRt
biomaRt goslim go
updated 7.4 years ago by ★ 6.5k • written 7.4 years ago by ▴ 110
1
vote
4
replies
2.3k
views
GO slim data for GAGE GSEA analysis
GSEA GAGE GO
updated 7.4 years ago by ★ 1.2k • written 7.7 years ago by ▴ 110
0
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0
replies
2.3k
views
Answer: A: GO slim data for GAGE GSEA analysis
7.5 years ago rubi ▴ 110
0
votes
0
replies
1.9k
views
AUC and IC50 for a dose response curve using PharmacoGx
dose-response PharmacoGx drc AUC IC50
7.5 years ago rubi ▴ 110
0
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1
reply
1.0k
views
Installation of PharmacoGx on linux fails
PharmacoGx Installation
updated 7.5 years ago by 25k • written 7.5 years ago by ▴ 110
0
votes
2
replies
1.3k
views
Error: 1: Extra content at the end of the document in using biomaRt
biomaRt
updated 7.7 years ago by 1.6k • written 7.7 years ago by ▴ 110
0
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1
reply
1.6k
views
Comment: C: Extract coordinates of overlapping genomic intervals
7.7 years ago rubi ▴ 110
3
votes
5
replies
1.6k
views
Extract coordinates of overlapping genomic intervals
genomicranges findoverlaps intersect
updated 7.7 years ago by ★ 13k • written 7.7 years ago by ▴ 110
0
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1
reply
1.6k
views
Comment: C: Extract coordinates of overlapping genomic intevals
7.7 years ago rubi ▴ 110
10
votes
4
replies
4.4k
views
Filtering lowly expressed genes in voom-limma analysis
voom limma rna-seq differential gene expression
updated 7.7 years ago by 50k • written 7.7 years ago by ▴ 110
11
votes
3
replies
1.7k
views
Fit a multinomial to RNA-seq count data
voom limma glm multinomial regression
updated 7.8 years ago by ★ 3.3k • written 7.8 years ago by ▴ 110
3
votes
1
reply
1.1k
views
Interpretation of voom limma's intercept coefficient
limma voom intercept coefficient
updated 7.8 years ago by 65k • written 7.8 years ago by ▴ 110
8
votes
3
replies
1.4k
views
Counting ambiguously mapped reads per feature
rnaseq bam genomicranges GenomicAlignments Rsamtools
updated 7.8 years ago by 50k • written 7.8 years ago by ▴ 110
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