0
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1
reply
196
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DESeq2 gives an error and R crashes
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5 weeks ago Shefali • 0
0
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0
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151
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LearnTaxa with custom Silva
DECIPHER LearnTaxa
5 weeks ago Eryn • 0
0
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queryDGIdb lexical error for some genes
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5 weeks ago Dennis • 0
0
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1
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196
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compareCluster dotplot: how to modify the genesets order
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updated 4 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
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0
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128
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ggtree tip label position (depth)
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5 weeks ago Roope • 0
2
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6
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458
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How to make boxplot with pairwise and overall p value from Limma
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5 weeks ago Chris ▴ 10
0
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0
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161
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Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
clusterProfiler gseKEGG
6 weeks ago andromeda • 0
0
votes
1
reply
142
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Granges regionCounts not returning the expected number of entries
methylKit
6 weeks ago Modoc Kesner ▴ 10
0
votes
0
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116
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flowDensity on a flowset
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6 weeks ago fredrikwallberg • 0
0
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0
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104
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DMRcate error need at least two non-NA values to interpolate
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6 weeks ago Macsue • 0
0
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1
reply
174
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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
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314
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Error in if (nrow(peaks) > 0) { : argument is of length zero Calls: CopywriteR ... tryCatch -> tryCatchList -> tryCatchOne -> <Anonymous> Execution h…
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6 weeks ago fer_talavera • 0
0
votes
2
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281
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Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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6 weeks ago • updated 28 days ago isaac.vock • 0
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7
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435
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Internet connection for Bioconductor packages in Rstudio in Iran...
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6 weeks ago needNGS • 0
0
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0
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How to extract the coordinate of dba.plotPCA?
DiffBind PCA
7 weeks ago feather-W • 0
0
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0
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120
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PCA plot for normalized counts using Diffbind
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7 weeks ago Ankit ▴ 20
1
vote
5
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363
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fgsea fork
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updated 7 weeks ago by 65k • written 7 weeks ago by • 0
0
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0
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109
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DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
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7 weeks ago Pierre Lindenbaum ▴ 10
0
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0
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139
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Using Granges to find overlapping pairs at exactly 10kb distance
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7 weeks ago gshweta95 • 0
3
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3
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454
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Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
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updated 7 weeks ago by ▴ 160 • written 7 weeks ago by • 0
2
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1
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230
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Only positive enrichment score in GSEA
clusterProfiler annotation gseGO gsea OrgDb
updated 7 weeks ago by ★ 4.0k • written 8 weeks ago by ▴ 10
0
votes
0
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124
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Can i retrieve domain information from PANTHER ID's using PANTHER.db ?
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8 weeks ago nromerov • 0
1
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3
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269
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cBioPortalData loads empty z-score expression table
cBioPortalData
updated 8 weeks ago by 700 • written 8 weeks ago by • 0
0
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0
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140
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crlmm: CDF for Infinium Global Diversity Array By Illumina
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8 weeks ago mayra.haedo • 0
0
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0
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Macsquant FCS in read.FCS & opencyto
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8 weeks ago taylor.witte • 0
0
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0
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150
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Multifactor analysis in DiffBind
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8 weeks ago erbrocato • 0
1
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4
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312
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EDAseq to normalise for both gene-length and GC-content
norma EDASeq EDA Normalization
8 weeks ago samuel.channon • 0
0
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2
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213
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Visium RNA
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updated 8 weeks ago by • 0 • written 8 weeks ago by • 0
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Extracting genomic sequences using agat and bedtools yields different results
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updated 8 weeks ago by ★ 4.1k • written 8 weeks ago by • 0
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0
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119
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DNAcopy segment function not reproducible even when setting seed
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8 weeks ago BID • 0
1
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3
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289
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updated 7 weeks ago by ▴ 10 • written 8 weeks ago by • 0
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Error in msaFun Cannot open input file. No alignment!
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0
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reply
204
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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
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195
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Rsubread: buildindex() should support multiple reference files
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updated 8 weeks ago by 50k • written 9 weeks ago by ▴ 180
0
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2
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Scores used for DiffBind's dba.plotHeatmap
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9 weeks ago Sam ▴ 10
0
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1
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250
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TCGA clinical data: Multiple measure of response columns in merged clinical xml file.
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written 9 weeks ago by • 0
0
votes
1
reply
212
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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
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FELLA plotGraph function won't change the legend
FELLA
9 weeks ago yuhang • 0
0
votes
0
replies
165
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medips-output
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9 weeks ago Researcher • 0
0
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155
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Join BOC Sciences at Drug Discovery Chemistry
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9 weeks ago bocsci11 • 0
0
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0
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The graphical interface of FELLA doesn't work
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9 weeks ago yuhang • 0
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DEXSeq plot error
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9 weeks ago jean-christophe.helbling • 0
0
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To analyze StringTie data using the isoformSwitchAnalyzeR package
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10 weeks ago Henry • 0
0
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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
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0
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Rain error: invalid annotation of time points
rain
10 weeks ago mpuli011 • 0
0
votes
0
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217
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Can MethylationEPIC v1 and v2 data be used together for analysis with minfi?
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10 weeks ago Felix • 0
0
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0
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168
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TCGAbiolinks STAD project 450k Methylation Beta Value data
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10 weeks ago • updated 8 weeks ago Giovanni Calice ▴ 160
0
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0
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239
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Error: grouping factors must have > 1 sampled level
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updated 10 weeks ago by 65k • written 10 weeks ago by • 0
0
votes
0
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158
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Feature Counts -R XS Read Assignment Tag
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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?
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11 weeks ago jk • 0
1,000 results • Page 2 of 20
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Replies
Comment: DESeq2- Mysterious interaction suppresses DEGs by shaunpeterson • 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Comment: STRINGdb : error with string_db$plot_network() by ninidea • 0
> Does the vignette produce the same error? No. Anyway, I finally solved the problem. I don't know why, but I removed: protocol='http' fr…
Comment: maSigPro genes from clusters by anne-laure • 0
Hello It is a litlle bit late but I do not get how to extract the genes from each cluster identified by see.genes(sigs$sig.genes$Day4vs…
Comment: STRINGdb : error with string_db$plot_network() by damian.szk ▴ 80
Your code seems ok. Does the vignette produce the same error? [link to STRINGdb R script vignette][1] [1]: https://www.bioconductor.or…
Votes
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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