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0
votes
5
answers
55
views
5
answers
DiffBind error with dba.count
diffbind written 10 days ago by hhhcce • 0
4
votes
3
answers
65
views
3
answers
makeTxDbFromUCSC("hg19", "refGene") gives "not supported" error
genomicfeatures written 9 days ago by RJ • 10 • updated 6 days ago by James W. MacDonald ♦ 46k
0
votes
3
answers
49
views
3
answers
WGCNA: intrepreting grey unassigned "module"?
rnaseq wgcna gene expression co-expression network written 1 day ago by davidjameswheatcroft • 0 • updated 19 hours ago by Peter Langfelder • 1.4k
0
votes
2
answers
81
views
2
answers
Uniprot.ws getting Function [CC]
uniprot.ws columns written 4 days ago by schmid10 • 0 • updated 1 day ago by James W. MacDonald ♦ 46k
1
vote
2
answers
38
views
2
answers
edgeR/DGEList add assays to a DGEList like in SummarizedExperiment
edger dgelist summarizedexperiment written 2 days ago by aljoscha.leusmann • 0
8
votes
2
answers
76
views
2
answers
read counts for gene families
edger written 4 days ago by zhou_hye • 10 • updated 4 days ago by Gordon Smyth ♦ 33k
0
votes
2
answers
30
views
2
answers
Problems Installing biomaRt
biomart linux written 1 day ago by christopher.mcfall • 0
0
votes
2
answers
55
views
2
answers
GenomicRanges::slidingWindows - method is not in the library
genomicranges-method slidingwindows written 7 days ago by m.boltengagen • 0
3
votes
2
answers
2.5k
views
2
answers
DESeq2 Error in varianceStabilizingTransformation
deseq2 written 3.5 years ago by mfarhi • 10 • updated 7 hours ago by kasia_piwosz • 0
3
votes
2
answers
73
views
2
answers
S4Vectors and subectHits error
s4vectors copywriter written 2 days ago by TriS • 200 • updated 2 days ago by Michael Lawrence ♦ 10.0k
1
vote
2
answers
96
views
2
answers
Gene-Metabolite and Metabolite-Pathway network from KEGG with KEGGREST
keggrest kegg written 4 days ago by hkarakurt • 10 • updated 3 days ago by 7kemZmani • 10
2
votes
2
answers
47
views
2
answers
Error "if (is.na(peaks)) { : argument is of length zero " in DiffBind
chipseq diffbind peaks dba is.na written 4 days ago by maria.kondili • 0
2
votes
1
answer
107
views
1
answer
Design/contrast matrix for Multivariate experimental design in limma
microarray limma design and contrast matrix written 4 days ago by 1234anjalianjali1234 • 0 • updated 3 days ago by Gordon Smyth ♦ 33k
0
votes
1
answer
62
views
1
answer
featureCounts taking 4-10 hours per BAM file?
rnaseq R featurecounts written 3 days ago by octopuslegs11 • 0
2
votes
1
answer
49
views
1
answer
Limma model for paired and pool together
rnaseq limma design written 2 days ago by b.nota • 290 • updated 2 days ago by Ryan C. Thompson ♦ 6.5k
0
votes
1
answer
66
views
1
answer
DESeq2: Poor dispersion fit, even when a local or custom fit is used
deseq2 dispersion written 4 days ago by Frederik Ziebell • 0
2
votes
1
answer
44
views
1
answer
How to write a preprocess.reads function for summarizeOverlaps that requires different logic for paired and single end reads?
genomicalignments summarizeoverlaps written 7 days ago by Ryan C. Thompson ♦ 6.5k • updated 6 days ago by Valerie Obenchain ♦♦ 6.4k
0
votes
1
answer
27
views
1
answer
Difference between biomart R and biomart website GO query
go biomart getbm ensemblbiomart written 2 days ago by daniel.gaffney • 20 • updated 2 days ago by Mike Smith • 2.6k
16
votes
1
answer
148
views
1
answer
How to check the read length for all the TCGA data samples in GDC?
tcga wes gdc gdc data written 3 days ago by ghk • 60 • updated 3 days ago by Sean Davis ♦ 21k
2
votes
1
answer
71
views
1
answer
limma RNA-seq analysis of human data
limma human heterogenous written 4 days ago by g.e.novakovsky • 0 • updated 4 days ago by Aaron Lun • 19k
2
votes
1
answer
73
views
1
answer
ReportingTools Segmentation fault
reportingtools reporting tools written 3 days ago by michael • 10 • updated 3 days ago by becker.gabriel • 0
2
votes
1
answer
48
views
1
answer
Accessing R 3.4.2 version on mac, to use 'rnaseqGene' package
rnaseq rnaseqgene r 3.4.2 mac written 3 days ago by harry.horsnell.17 • 0 • updated 2 days ago by shepherl ♦♦ 560
1
vote
1
answer
60
views
1
answer
Allele-specific expression with different gene lenghts
rnaseq deseq2 allele-specific-expression written 4 days ago by gtechbio • 0 • updated 3 days ago by Michael Love ♦ 17k
0
votes
1
answer
43
views
1
answer
counting reads with muliple hits with SummarizeOverlaps
R ngs summarizeoverlaps seq written 18 days ago by Lolla • 0 • updated 4 days ago by Valerie Obenchain ♦♦ 6.4k
2
votes
1
answer
83
views
1
answer
Error in ebayes in limma when analyzing GTEx data
limma voom gtex written 6 days ago by Darklings • 0
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