0
votes
1
reply
193
views
DESeq2 gives an error and R crashes
DESeq2
5 weeks ago Shefali • 0
3
votes
6
replies
304
views
Surrogate variable analysis for paired RNA seq experiment
RUVSeq sva
5 weeks ago nhaus ▴ 30
0
votes
0
replies
148
views
LearnTaxa with custom Silva
DECIPHER LearnTaxa
5 weeks ago Eryn • 0
0
votes
0
replies
95
views
queryDGIdb lexical error for some genes
lexicalerror rDGIdb DGIdb json
5 weeks ago Dennis • 0
0
votes
1
reply
359
views
Gene names from Matrix
BioCor StarBioTrek MatrixGenerics
updated 5 weeks ago by ▴ 730 • written 7 months ago by • 0
0
votes
0
replies
126
views
ggtree tip label position (depth)
ggtree
5 weeks ago Roope • 0
0
votes
1
reply
519
views
Cibersort phenotype file
cibersort deconvR immune
updated 5 weeks ago by • 0 • written 15 months ago by • 0
2
votes
6
replies
451
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
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
1
reply
558
views
CopywriteR output
CopywriteR
updated 5 weeks ago by • 0 • written 2.5 years 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
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
0
replies
115
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
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
3
replies
341
views
Statistical test
NewWave
written 4 months ago by • 0
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
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
0
votes
0
replies
109
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
7 weeks ago Pierre Lindenbaum ▴ 10
1
vote
3
replies
289
views
miRTarRnaseq library
miRNATarget mirTarRnaSeq
updated 7 weeks ago by ▴ 10 • written 8 weeks ago by • 0
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
1
vote
1
reply
269
views
FCS3.2 reading
flowWorkspace flowCore CytoML
updated 7 weeks ago by ▴ 350 • written 12 weeks ago by ▴ 30
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
2
replies
585
views
ageData (minfi pipeline)
ageData missMethyl differentialvariability minfi
updated 7 weeks ago by • 0 • written 12 months 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
2
replies
280
views
Error in msaFun Cannot open input file. No alignment!
msa
written 8 weeks ago by ▴ 30
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 690 • written 8 weeks ago by • 0
1
vote
4
replies
310
views
EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
8 weeks ago samuel.channon • 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
2
replies
305
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
2
replies
213
views
Visium RNA
metaMSdata
updated 8 weeks ago by • 0 • written 8 weeks ago by • 0
0
votes
0
replies
119
views
DNAcopy segment function not reproducible even when setting seed
DNAcopy
8 weeks ago BID • 0
0
votes
0
replies
166
views
TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
10 weeks ago • updated 8 weeks ago Giovanni Calice ▴ 160
1
vote
2
replies
737
views
gds in GEOmetadb 2023-06-26 version is empty
GEOmetadb
written 10 months ago by ▴ 10
0
votes
1
reply
1.1k
views
How can I compute AIC for MAST hurdle model fitted in the whole dataset?
MAST AIC calcuation Parameters single cell hurdle model
updated 8 weeks ago by ▴ 20 • written 5.3 years ago by • 0
0
votes
1
reply
189
views
Sample-specific methylation values using QSEA
DNAMethylation cfMeDIP-seq cfDNA qsea
updated 8 weeks ago by • 0 • written 3 months ago by • 0
0
votes
1
reply
194
views
Rsubread: buildindex() should support multiple reference files
Rsubread
updated 8 weeks ago by 50k • written 8 weeks ago by ▴ 180
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
3
votes
1
reply
1.9k
views
TwoSampleMR and ieugwasr
ieugwasr clumping TwoSampleMR
updated 8 weeks ago by ▴ 10 • written 2.2 years ago by ▴ 90
0
votes
1
reply
686
views
gwas power calculation for quantitative traits
power GWAS
written 2.7 years ago by • 0
0
votes
2
replies
271
views
Scores used for DiffBind's dba.plotHeatmap
DiffBind
9 weeks ago Sam ▴ 10
0
votes
1
reply
248
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
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
1,000 results • Page 2 of 20
Recent ...
Replies
Comment: Ensembl plants at annotationHub? by Johannes Rainer ★ 2.0k
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…
Answer: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by makala • 0
Thanks a lot!
Comment: DECIPHER::idTaxa - broken link to download GTDB r220 (modified) trainig set by Erik Wright ▴ 150
Thanks for notifying us of this broken link. It should be fixed on the Downloads page now. [1] [1]: http://www2.decipher.codes/Classificat…
Votes
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
Comment: Can DESeq2 rlog normalized matrix reflects time course result directly?
Awards • All
Popular Question to Johannes Rainer ★ 2.0k
Popular Question to Chris ▴ 10
Popular Question to Guido Hooiveld ★ 4.0k
Scholar to Michael Love 42k
Popular Question to Vincent J. Carey, Jr. 6.7k
Locations • All
The city by the bay, 8 minutes ago
Italy, 11 minutes ago
Greece, 12 minutes ago
Singapore, 29 minutes ago
China, 1 hour ago
Traffic: 444 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6