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194
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ISO statistical test for obs-exp A,T,C,G counts by genomic range/position
GenomicRanges
10 weeks ago
mat149
▴ 70
2
votes
1
reply
258
views
Need Help w/ Subset on GRangesList
GenomicRange
GenomicRanges
12 weeks ago
mat149
▴ 70
2
votes
4
replies
531
views
Need help generating BSgenome and orgdb
OrgDb
BSgenome
6 months ago • updated 12 weeks ago
mat149
▴ 70
2
votes
5
replies
768
views
Help with orgdb for non-model species via makeOrgPackageFromNCBI
AnnotationForge
makeOrgPackageFromNCBI
updated 6 months ago by
James W. MacDonald
65k • written 6 months ago by
mat149
▴ 70
2
votes
3
replies
1.2k
views
indexBam(), summarizeOverlaps() error: RNA-seq
genomicAlignments
RNA-seq
Rsamtools
updated 5.2 years ago by
Mike Smith
★ 6.5k • written 5.2 years ago by
mat149
▴ 70
6
votes
3
replies
3.8k
views
How to calculate log2 fold change between two groups in a microarray study
limma
updated 5.2 years ago by
Gordon Smyth
50k • written 5.2 years ago by
mat149
▴ 70
0
votes
1
reply
1.0k
views
Making microarray probeset presence/absence calls
oligo
updated 6.2 years ago by
James W. MacDonald
65k • written 6.2 years ago by
mat149
▴ 70
4
votes
2
replies
1.8k
views
Help: extract counts from RNA-seq .bam/.bai files
counts
edger
updated 7.0 years ago by
Aaron Lun
★ 28k • written 7.0 years ago by
mat149
▴ 70
5
votes
11
replies
4.9k
views
Duplicate gene ID's returned from limma microarray analysis
limma
microarray
updated 2.0 years ago by
Gordon Smyth
50k • written 7.3 years ago by
mat149
▴ 70
1
vote
5
replies
1.3k
views
ISO help with goana
limma
7.4 years ago
mat149
▴ 70
0
votes
4
replies
2.2k
views
How to filter probesets from the expression set that do not contain Entrez/Gene Symbol identifiers
oligo
updated 7.4 years ago by
James W. MacDonald
65k • written 7.4 years ago by
mat149
▴ 70
0
votes
1
reply
679
views
ISO help making a heatmap from a subset of microarray probes in the expression set
oligo
updated 7.4 years ago by
James W. MacDonald
65k • written 7.4 years ago by
mat149
▴ 70
4
votes
5
replies
3.2k
views
How to make a (limma) heatmap displaying gene ID's as rownames
limma
microarray
7.4 years ago
mat149
▴ 70
0
votes
5
replies
4.3k
views
How to select the genes mapped to an enriched KEGG pathway (kegga)
kegga
updated 7.4 years ago by
Gordon Smyth
50k • written 7.5 years ago by
mat149
▴ 70
0
votes
4
replies
1.9k
views
need help with microarray GO enrichment using goana
goana
limma
updated 7.5 years ago by
Gordon Smyth
50k • written 7.5 years ago by
mat149
▴ 70
0
votes
1
reply
841
views
ISO help making a colored pathway diagram to display enriched KEGG pathways
limma
edger
updated 7.5 years ago by
Gordon Smyth
50k • written 7.5 years ago by
mat149
▴ 70
0
votes
2
replies
882
views
Help with limma contrast/design matrices
limma contrast matrix
7.5 years ago
mat149
▴ 70
2
votes
6
replies
1.7k
views
Help: obtain Entrez ID's from limma top table with Affymetrix microarray (pd.zebgene.1.1.st)
affmetrix
microarray
limma
oligo
updated 7.5 years ago by
James W. MacDonald
65k • written 7.5 years ago by
mat149
▴ 70
0
votes
2
replies
1.4k
views
Need help annotating Affymetrix 1.1ST microarrays
oligo
annotation
affymetrix microarrays
zebrafish
updated 7.6 years ago by
Guido Hooiveld
★ 3.9k • written 7.6 years ago by
mat149
▴ 70
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