0
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0
replies
153
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LearnTaxa with custom Silva
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5 weeks ago Eryn • 0
0
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0
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97
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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
reply
199
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compareCluster dotplot: how to modify the genesets order
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updated 5 weeks ago by ★ 4.0k • written 5 weeks ago by • 0
0
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0
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130
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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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465
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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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163
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Why output of GSEA is not the same but inversed, when you have the same but inversed input data?
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6 weeks ago andromeda • 0
0
votes
1
reply
146
views
Granges regionCounts not returning the expected number of entries
methylKit
6 weeks ago Modoc Kesner ▴ 10
0
votes
0
replies
117
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flowDensity on a flowset
flowDensity
6 weeks ago fredrikwallberg • 0
0
votes
0
replies
106
views
DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
6 weeks ago Macsue • 0
0
votes
1
reply
176
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
315
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 fer_talavera • 0
0
votes
2
replies
283
views
Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
6 weeks ago • updated 4 weeks ago isaac.vock • 0
0
votes
7
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440
views
Internet connection for Bioconductor packages in Rstudio in Iran...
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7 weeks ago • updated 6 weeks ago needNGS • 0
0
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0
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126
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How to extract the coordinate of dba.plotPCA?
DiffBind PCA
7 weeks ago feather-W • 0
0
votes
0
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124
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PCA plot for normalized counts using Diffbind
DiffBind PCAplot
7 weeks ago Ankit ▴ 20
1
vote
5
replies
368
views
fgsea fork
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updated 7 weeks ago by 65k • written 7 weeks ago by • 0
0
votes
0
replies
112
views
DIFFBIND : beginner questions, sex, multiple phenotypes, etc...
DiffBind ATACSeq
7 weeks ago Pierre Lindenbaum ▴ 10
0
votes
0
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141
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Using Granges to find overlapping pairs at exactly 10kb distance
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7 weeks ago gshweta95 • 0
3
votes
3
replies
456
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Function 'sexp_as_cholmod_sparse' doesn't exist in the package 'Matrix'
scater runPCA
updated 7 weeks ago by ▴ 160 • written 8 weeks ago by • 0
2
votes
1
reply
233
views
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
replies
124
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Can i retrieve domain information from PANTHER ID's using PANTHER.db ?
PANTHER.db
8 weeks ago nromerov • 0
1
vote
3
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271
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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
votes
0
replies
141
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crlmm: CDF for Infinium Global Diversity Array By Illumina
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8 weeks ago mayra.haedo • 0
0
votes
0
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124
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Macsquant FCS in read.FCS & opencyto
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8 weeks ago taylor.witte • 0
0
votes
0
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150
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Multifactor analysis in DiffBind
DiffBind multifactoranalysis
8 weeks ago erbrocato • 0
1
vote
4
replies
313
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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
votes
2
replies
214
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Visium RNA
metaMSdata
updated 8 weeks ago by • 0 • written 8 weeks ago by • 0
1
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2
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309
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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
0
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0
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120
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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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290
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miRTarRnaseq library
miRNATarget mirTarRnaSeq
updated 7 weeks ago by ▴ 10 • written 8 weeks ago by • 0
0
votes
2
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291
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Error in msaFun Cannot open input file. No alignment!
msa
written 8 weeks ago by ▴ 30
0
votes
1
reply
206
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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
votes
1
reply
199
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Rsubread: buildindex() should support multiple reference files
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updated 9 weeks ago by 50k • written 9 weeks ago by ▴ 180
0
votes
2
replies
275
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Scores used for DiffBind's dba.plotHeatmap
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9 weeks ago Sam ▴ 10
0
votes
1
reply
254
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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
215
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Exact same results in Diffbind with different normalization methods
DiffBind
9 weeks ago red_bricks ▴ 50
0
votes
0
replies
139
views
FELLA plotGraph function won't change the legend
FELLA
9 weeks ago yuhang • 0
0
votes
0
replies
172
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medips-output
ngsReports MEDIPS
9 weeks ago Researcher • 0
0
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0
replies
156
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Join BOC Sciences at Drug Discovery Chemistry
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9 weeks ago bocsci11 • 0
0
votes
0
replies
123
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The graphical interface of FELLA doesn't work
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9 weeks ago yuhang • 0
0
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0
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145
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DEXSeq plot error
DEXSeq DEXSeqNAvalues DEXseq
9 weeks ago jean-christophe.helbling • 0
0
votes
0
replies
173
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To analyze StringTie data using the isoformSwitchAnalyzeR package
IsoformSwitchAnalyzeR
10 weeks ago Henry • 0
0
votes
1
reply
257
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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
198
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Rain error: invalid annotation of time points
rain
10 weeks ago mpuli011 • 0
0
votes
0
replies
219
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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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170
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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
votes
0
replies
244
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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
replies
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
183
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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
0
votes
0
replies
167
views
Can I combine collinear variables into a single value
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11 weeks ago Harrsha • 0
1,000 results • Page 2 of 20
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Answer: all variables in design formula must be columns in colData (Deseq2) error by ATpoint ★ 4.1k
Your code is poorly readable. Suggest you select and then highlight with markdown using the `10101` button. Generally, colData(dds) must…
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Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
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Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
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Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub? by Daniele • 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
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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
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