0
votes
0
replies
96
views
queryDGIdb lexical error for some genes
lexicalerror rDGIdb DGIdb json
5 weeks ago Dennis • 0
0
votes
1
reply
195
views
compareCluster dotplot: how to modify the genesets order
DOSE enrichplot clusterProfiler
updated 4 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
0
votes
0
replies
128
views
ggtree tip label position (depth)
ggtree
5 weeks ago Roope • 0
2
votes
6
replies
452
views
How to make boxplot with pairwise and overall p value from Limma
t.test boxplot limma anova
5 weeks ago Chris ▴ 10
0
votes
0
replies
161
views
Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler gseKEGG
5 weeks ago andromeda • 0
0
votes
1
reply
142
views
Granges regionCounts not returning the expected number of entries
methylKit
6 weeks ago • updated 5 weeks ago Modoc Kesner ▴ 10
0
votes
0
replies
116
views
flowDensity on a flowset
flowDensity
6 weeks ago fredrikwallberg • 0
0
votes
0
replies
104
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
6 weeks ago Macsue • 0
0
votes
1
reply
173
views
No output from read.bismark with bismark cov.files
bsseq methylation
updated 6 weeks ago by 65k • written 6 weeks ago by • 0
0
votes
2
replies
314
views
Error in if (nrow(peaks) > 0) { : argument is of length zero Calls: CopywriteR ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution h…
CopywriteR CopyhelpeR
6 weeks ago • updated 5 weeks ago fer_talavera • 0
0
votes
2
replies
279
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
6 weeks ago • updated 27 days ago isaac.vock • 0
0
votes
7
replies
434
views
Internet connection for Bioconductor packages in Rstudio in Iran...
No_internet_connection_Packages Proxy Bioconductor GEOquery Internet_connection_problem
6 weeks ago needNGS • 0
0
votes
0
replies
123
views
How to extract the coordinate of dba.plotPCA?
DiffBind PCA
6 weeks ago feather-W • 0
0
votes
0
replies
120
views
PCA plot for normalized counts using Diffbind
DiffBind PCAplot
6 weeks ago Ankit ▴ 20
1
vote
5
replies
363
views
fgsea fork
fgsea
updated 6 weeks ago by 65k • written 7 weeks ago by • 0
0
votes
0
replies
109
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
7 weeks ago Pierre Lindenbaum ▴ 10
3
votes
3
replies
450
views
Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
scater runPCA
updated 7 weeks ago by ▴ 160 • written 7 weeks ago by • 0
0
votes
0
replies
138
views
Using Granges to find overlapping pairs at exactly 10kb distance
genomeIntervals GenomicRanges
7 weeks ago gshweta95 • 0
2
votes
1
reply
229
views
Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 7 weeks ago by ★ 4.0k • written 7 weeks ago by ▴ 10
0
votes
0
replies
124
views
Can i retrieve domain information from PANTHER ID's using PANTHER.db ?
PANTHER.db
8 weeks ago nromerov • 0
1
vote
3
replies
269
views
cBioPortalData loads empty z-score expression table
cBioPortalData
updated 8 weeks ago by 700 • written 8 weeks ago by • 0
0
votes
0
replies
140
views
crlmm: CDF for Infinium Global Diversity Array By Illumina
globaldiversityarray cdf crlmm
8 weeks ago mayra.haedo • 0
0
votes
0
replies
124
views
Macsquant FCS in read.FCS & opencyto
FlowCytometry flowWorkspace flowCore
8 weeks ago taylor.witte • 0
0
votes
0
replies
150
views
Multifactor analysis in DiffBind
DiffBind multifactoranalysis
8 weeks ago erbrocato • 0
1
vote
4
replies
312
views
EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
8 weeks ago samuel.channon • 0
0
votes
2
replies
213
views
Visium RNA
metaMSdata
updated 8 weeks ago by • 0 • written 8 weeks ago by • 0
1
vote
2
replies
306
views
Extracting genomic sequences using agat and bedtools yields different results
MAST
updated 8 weeks ago by ★ 4.1k • written 8 weeks ago by • 0
0
votes
0
replies
119
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DNAcopy segment function not reproducible even when setting seed
DNAcopy
8 weeks ago BID • 0
1
vote
3
replies
289
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miRTarRnaseq library
miRNATarget mirTarRnaSeq
updated 7 weeks ago by ▴ 10 • written 8 weeks ago by • 0
0
votes
2
replies
280
views
Error in msaFun Cannot open input file. No alignment!
msa
written 8 weeks ago by ▴ 30
0
votes
1
reply
203
views
Help with identifying genes mapped to KEGG pathway using pathview
pathview
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by • 0
0
votes
1
reply
194
views
Rsubread: buildindex() should support multiple reference files
Rsubread
updated 8 weeks ago by 50k • written 9 weeks ago by ▴ 180
0
votes
2
replies
271
views
Scores used for DiffBind's dba.plotHeatmap
DiffBind
9 weeks ago Sam ▴ 10
0
votes
1
reply
250
views
TCGA clinical data: Multiple measure of response columns in merged clinical xml file.
TCGAbiolinks TCGA clinical TCGA-BRCA
written 9 weeks ago by • 0
0
votes
1
reply
212
views
Exact same results in Diffbind with different normalization methods
DiffBind
9 weeks ago • updated 8 weeks ago red_bricks ▴ 50
0
votes
0
replies
138
views
FELLA plotGraph function won't change the legend
FELLA
9 weeks ago yuhang • 0
0
votes
0
replies
165
views
medips-output
ngsReports MEDIPS
9 weeks ago Researcher • 0
0
votes
0
replies
154
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Join BOC Sciences at Drug Discovery Chemistry
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9 weeks ago bocsci11 • 0
0
votes
0
replies
122
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The graphical interface of FELLA doesn't work
FELLA
9 weeks ago yuhang • 0
0
votes
0
replies
142
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DEXSeq plot error
DEXSeq DEXSeqNAvalues DEXseq
9 weeks ago jean-christophe.helbling • 0
0
votes
0
replies
170
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To analyze StringTie data using the isoformSwitchAnalyzeR package
IsoformSwitchAnalyzeR
10 weeks ago Henry • 0
0
votes
1
reply
255
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Rcpp compilation error
Release Rcpp
updated 10 weeks ago by ★ 4.1k • written 10 weeks ago by ▴ 40
0
votes
0
replies
194
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Rain error: invalid annotation of time points
rain
10 weeks ago mpuli011 • 0
0
votes
0
replies
216
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Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
minfi minfiDataEPIC
10 weeks ago Felix • 0
0
votes
0
replies
167
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
10 weeks ago • updated 8 weeks ago Giovanni Calice ▴ 160
0
votes
0
replies
239
views
Error: grouping factors must have > 1 sampled level
Mast mastR MAST
updated 10 weeks ago by 65k • written 10 weeks ago by • 0
0
votes
0
replies
158
views
Feature Counts -R XS Read Assignment Tag
FeatureCounts Rsubread
10 weeks ago chris2.a.white • 0
0
votes
0
replies
181
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Could SGSeq utilizes "ts" tag produced from minimap2 other than "XS" tag?
XS-tag SplicedAlignment SGSeq minimap2
11 weeks ago jk • 0
0
votes
0
replies
164
views
Can I combine collinear variables into a single value
BatchEffect limma
11 weeks ago Harrsha • 0
0
votes
0
replies
257
views
Error in set(x, j = name, value = value) : Supplied 52 items to be assigned to 55 items of column 'locus'. If you wish to 'recycle' the RHS please…
ASpli
11 weeks ago vipul14 • 0
1,000 results • Page 2 of 20
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Comment: Error while installing BiocManager::install("org.Vdahliae.eg.db") by Patadù ▴ 10
Hi @marcelramos Thanks for the clarification. Yes, I have installed `org.Vdahlaie.eg.db` using the code you and Guido suggested and now i…
Comment: European Bioconductor Conference 2023 planning by angelaesper43 • 0
@Maria Doyle[sexdolltech][1]Hosting EuroBioC provides an excellent opportunity to showcase Bioconductor and computational biology research …
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Dear Daniele, for which Ensembl release would you need the data? the most recent is 112, but if you used a different version before it wou…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Dear Johannes, Would it be possible to create the EnsDb for Triticum aestivum (IWGSC)? Thank you very much, Daniele
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools by BioinfGuru ▴ 30
Figured it out with ?eigencorplot, thanks Michael. I was trying to pass 10 PCs when I only had 8, and I was including metadata columns that…
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Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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