1
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2
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536
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GSVA error
GSVA
23 days ago • updated 21 days ago Alex • 0
0
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2
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922
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Single-Cell Data Simulation from Bulk RNA-seq
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updated 19 days ago by • 0 • written 17 months ago by • 0
2
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ComplexHeatmap: change the names of a HeatmapAnnotation object
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24 days ago • updated 22 days ago daniel.carbajo • 0
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2
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How to retrieve detailed regression results from deseq2
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26 days ago • updated 17 days ago Weiqian ▴ 10
1
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2
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significant difference of p-values with dream() after updating VariancePartition
variancePartition
19 days ago • updated 18 days ago Le • 0
0
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2
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249
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Regressing out batch effects
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updated 27 days ago by 42k • written 4 weeks ago by • 0
0
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2
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DESeq2 v1.35.0
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updated 4 days ago by 42k • written 4 days ago by • 0
1
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2
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334
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limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 3 days ago by 50k • written 3 days ago by • 0
2
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2
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172
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[DiffBind] Obtaining normalization factors
DiffBind
24 days ago • updated 21 days ago Henry ▴ 10
1
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2
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301
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CombineArrays for EPIC and EPIC V2
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4 weeks ago • updated 3 days ago Kim • 0
1
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2
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142
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geneList error in clusterprofiler
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20 days ago Ana • 0
0
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2
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249
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featureCounts reports an error:"featureCounts: input-files.c:2890: SAM_pairer_get_next_read_BIN: Assertion `l_name < 256' failed. Aborted (core dumpe…
metaMSdata
14 days ago • updated 12 days ago shuwangxinze1996 • 0
0
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2
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257
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Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
featureCounts Rsubread
5 weeks ago • updated 17 days ago isaac.vock • 0
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392
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[Diffbind] Blacklist error: Error: Invalid Normalization and Unable to apply Blacklist/Greylist
DiffBind Normalization
25 days ago • updated 24 days ago Henry ▴ 10
2
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2
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fgsea significant result
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2 days ago • updated 1 day ago Chris • 0
1
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2
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235
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Get genomic coordinates of CpGs sites (chromosomes, genomic position)
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6 days ago • updated 5 days ago Yveto • 0
1
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2
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Design Matrix within group comparison more than two groups
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24 days ago • updated 23 days ago hemantcnaik • 0
2
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2
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192
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OrgDb for maize
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updated 17 days ago by 65k • written 18 days ago by • 0
3
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2
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217
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Cannabis and KEGGgraph
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updated 14 days ago by ★ 3.9k • written 17 days ago by ▴ 10
0
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2
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213
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RNAseq:Technical replicates from different batches
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17 days ago • updated 15 days ago catv • 0
1
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1
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179
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Citation for edgeR user guide
edgeR
updated 13 days ago by 50k • written 13 days ago by ▴ 30
1
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1
reply
114
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Fold change calculation in Diffbind vs. DESEQ2?
DiffBind ChIPSeqData DESeq2
updated 6 days ago by 42k • written 6 days ago by • 0
0
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1
reply
145
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The issue with SGSeq_analyzeFeatures() returns errors on BAM files
SGSeq
updated 21 days ago by • 0 • written 25 days ago by • 0
0
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1
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89
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Version 3.15 S4Vectors packages are missing
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updated 6 days ago by 3.9k • written 7 days ago by • 0
0
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1
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345
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Gene names from Matrix
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0
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1
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105
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Gene-by-sample covariates in limma
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updated 4 days ago by 50k • written 4 days ago by • 0
0
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1
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151
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BAM write error in HTSeqGenie
HTSeqGenie BAM
updated 27 days ago by 65k • written 27 days ago by • 0
3
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1
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179
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Log-cpm values from limma
limma edgeR RNASeq
updated 18 days ago by 50k • written 19 days ago by • 0
0
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1
reply
229
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How do I select a GC file (gc.wig)? (How to determine the inputdata of HMMcopy)
CopyNumberPlots HMMcopy CopyNumberVariation
updated 6 days ago by 65k • written 7 days ago by • 0
0
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1
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140
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Can you find the correct transcript in scRNA seq data
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1
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1
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Cannabis OrgDb
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1
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SNP locus package for mouse?
SNPlocs packFinder
updated 20 days ago by 65k • written 23 days ago by • 0
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Job: Postdoctoral Position in Bioinformatics - Mainz, Germany
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1
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187
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Differentially expressed genes in monocle pseudotime
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0
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1
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165
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IgG control in RIP-seq with Deseq2
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3
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Job: Post Doctoral position in AI (Deep learning / Machine learning) approaches for Cancer Research, MRC Cancer Unit, University of Cambridge, UK
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102
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Handling multiple differential expression comparisons
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updated 1 day ago by 42k • written 3 days ago by ▴ 10
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1
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148
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Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call when trying to subset pheatmap
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updated 5 days ago by ★ 4.1k • written 5 days ago by • 0
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1
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Dominance Index for Shotgun Metagenomics Data
microbiome
updated 10 days ago by ▴ 40 • written 10 days ago by ★ 1.5k
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ONT long-read RNA sequencing - data analysis options
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How can I create a GO plot with ggpubr and clusterProfiler libraries (begginer)
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3
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updated 13 days ago by 42k • written 13 days ago by ▴ 40
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covariate with negative and positive values
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updated 18 days ago by 42k • written 20 days ago by • 0
0
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1
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121
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what is the sampleFiles
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updated 20 days ago by 65k • written 21 days ago by • 0
3
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756
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News: [Pre-print] Transcriptome-scale spatial gene expression in the human dorsolateral prefrontal cortex
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written 4.2 years ago by ★ 1.0k
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105
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Padj "NA" with thousands of low count although the raw read counts are quite large
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updated 6 days ago by 42k • written 7 days ago by • 0
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1
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Tutorial: Online workshop "Working with ChatGPT in R" 2023-03-09
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updated 23 days ago by • 0 • written 14 months ago by ★ 13k
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updated 24 days ago by • 0 • written 24 days ago by • 0
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updated 18 days ago by ★ 4.1k • written 19 days ago by • 0
198 results • Page 3 of 4
Recent ...
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Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it by Hervé Pagès 16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Poonam • 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package) by Michael Love 42k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea() by James W. MacDonald 65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea() by Chris • 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: How to save the DEXSeq results
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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