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0
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789
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suggest to report differential expression estimate in ROTS
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3.0 years ago Yongqing • 0
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0
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Error: package or namespace load failed for 'AnnotationDbi' in loadNamespace(i, c(lib.loc, .libPaths()), versionCheck = vI[[i]]):
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3.0 years ago hswdl • 0
0
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2
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Memory error when trying to read part of H5 file
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updated 2.9 years ago by ★ 6.6k • written 3.0 years ago by • 0
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5
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How can I limit the number of displayed genes in heatplot
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updated 2.3 years ago by • 0 • written 3.0 years ago by • 0
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842
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Installing edgeR on M1 mac
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3.0 years ago Onur • 0
1
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1
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How to include background "universe" in compareCluster function of clusterprofiler package
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updated 3.0 years ago by ▴ 780 • written 3.0 years ago by • 0
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0
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Problems running WGCNA
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3.0 years ago S • 0
0
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0
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ALDEx2 Error Message: "dim(X) must have a positive length" when using aldex.clr() with denom="iqlr"
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3.0 years ago cwarden45 • 0
0
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0
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745
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Missing region location database for mm10 in the package
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3.0 years ago Isabelle Stévant ▴ 10
0
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0
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682
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benchdamic 1.4.0 fitNM matrix input
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3.0 years ago Robert Dunne ▴ 10
0
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3
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Representation of self-loops and the calculation of degrees
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updated 2.2 years ago by 6.7k • written 3.0 years ago by • 0
0
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1
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1.0k
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[Methylkit]-Error in validObject(.Object) :
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3.0 years ago liulip • 0
0
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0
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533
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A problem with Experimental Design for Limma
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3.0 years ago ToReality • 0
2
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4
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CoGAPS Installation Problem - clang compiler does not support '-march=native'
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3.0 years ago • updated 2.9 years ago MayerAdam • 0
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0
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normFactors or calcNormFactors (computing the normalization or scaling factors)
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3.0 years ago Bogdan ▴ 670
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2
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Diffenrent result from EMBOSS needle and Biostrings pairwiseAlignment ?
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updated 14 months ago by ▴ 20 • written 3.0 years ago by • 0
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0
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760
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Updating 16S training set with LearnTaxa
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3.0 years ago Connor • 0
0
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4
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what could be the source of this erro
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written 3.0 years ago by • 0
0
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0
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890
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I/O Error in install 'EnsDb.Hsapiens.v75' on a CentOS platform
EnsDb.Hsapiens.v75
3.0 years ago hjh811638667 • 0
0
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1
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1.7k
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DGE genes are not available in GSEA
dge gsea
updated 3.0 years ago by ★ 4.1k • written 3.0 years ago by • 0
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2
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4.6k
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Error in UseMethod("rescale")
clusterProfiler
updated 3.0 years ago by ★ 4.1k • written 3.0 years ago by • 0
0
votes
1
reply
1.5k
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Error in loadFUN(x, seqname, ranges) : trying to load regions beyond the boundaries of non-circular sequence "chr2"
HiCDCPlus BSgenome.Hsapiens.UCSC.hg38
updated 2.5 years ago by • 0 • written 3.0 years ago by • 0
0
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2
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1.2k
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could not find function "get_known_signatures"
MutationalPatterns
updated 3.0 years ago by 6.7k • written 3.0 years ago by ▴ 60
0
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3
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1.8k
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Problem with multiple sequence alignment using AlignSeqs
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updated 3.0 years ago by ▴ 150 • written 3.0 years ago by • 0
0
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1
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3.9k
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FeatureCounts: Low assigned reads, can I proceed? Do I need to do another pre-processing step?
LowAssignedReads STAR featureCounts
updated 3.0 years ago by ★ 1.4k • written 3.0 years ago by • 0
0
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0
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831
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RUVg for SNAP-ChIP ?
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3.0 years ago Bogdan ▴ 670
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0
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559
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RNA seq analysis
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3.0 years ago lesseyl • 0
0
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1
reply
850
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HiCDCPlus `construct_features` incompatible with BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0 annotation
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updated 2.5 years ago by • 0 • written 3.0 years ago by • 0
1
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1
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1.2k
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Problems installing methylumi package
methylumi
updated 3.0 years ago by ★ 6.6k • written 3.0 years ago by • 0
0
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1
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TCGA RNAseq Normalization
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updated 3.0 years ago by ★ 5.0k • written 3.0 years ago by • 0
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2
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ape::dnds produces nan value
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3.0 years ago Working • 0
0
votes
0
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807
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coexpression networks
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3.0 years ago María José • 0
0
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0
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931
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A question about GWENA R/Bioconductor package
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3.0 years ago Abdullah • 0
1
vote
7
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2.4k
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query regarding error in installation of "goseq" R bioconductor package
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votes
3
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IHW for multiple regression
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updated 2.9 years ago by ★ 13k • written 3.0 years ago by • 0
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0
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DESXSEQ warning (Fit for gene/exon ENSG0000002121 threw the next warning(s): the matrix is either rank-deficient or indefinite)?
DEXSeq
updated 3.0 years ago by 43k • written 3.0 years ago by • 0
0
votes
1
reply
897
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Empty ChipQC Report
ChipQCReport
updated 2.9 years ago by • 0 • written 3.1 years ago by • 0
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3
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updated 3.1 years ago by ▴ 20 • written 3.1 years ago by • 0
1
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3
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Not able to install packages in Bioconductor version '3.16'
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updated 2.9 years ago by 4.2k • written 3.1 years ago by • 0
1
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1
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2.6k
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Instaling glmGamPoi
glmGamPoi
updated 3.1 years ago by ★ 5.0k • written 3.1 years ago by • 0
1
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1
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1.0k
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ggcyto::scale_x_logicle() not converging
ggcyto
updated 3.0 years ago by 4.2k • written 3.1 years ago by ▴ 10
2
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3
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Packages dependent on rtracklayer fail: ERROR: lazy loading failed, unable to load shared object rtracklayer.so
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updated 2.9 years ago by • 0 • written 3.1 years ago by ▴ 10
0
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0
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WGCNA: minModuleSize is not responding correctly
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3.1 years ago • updated 14 months ago bioinformaticssrm2011 • 0
1
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1
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904
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add genome to BSgenome
bsgenome
updated 3.0 years ago by 4.2k • written 3.1 years ago by ▴ 10
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0
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How we could calculate the sample size for ATAC seq and single cell RNA seq, respectively?
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3.1 years ago gogniu • 0
0
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0
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Analysis of TIF-seq data to generate transcription start sites (TSS) and poly(A) site (PAS) clusters
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3.1 years ago Rom • 0
0
votes
1
reply
1.2k
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plotDEXSeq error?
DEXSeq dex
3.1 years ago barrypraveen • 0
0
votes
0
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Option request for featureCounts: Add an order of read manipulation to 'shift > reduction > extension'
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updated 3.1 years ago by ★ 5.0k • written 3.1 years ago by • 0
0
votes
1
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SingleR error with multiple references
SingleR
updated 2.6 years ago by • 0 • written 3.1 years ago by • 0
0
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0
replies
735
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is it possible to limit fgsea to particular tissue type?
fgsea
3.1 years ago kavator ▴ 30
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Comment: Bioinformatician at the Lausanne University Hospital by eja.ger.m • 0
For individuals looking to improve communication and collaboration in demanding medical or research environments like the Genetic Medicine …
Answer: NUPOP usage by shepherl 4.2k
You should read the documentation in the package especially the package vignette https://bioconductor.org/packages/release/bioc/html/NuPoP.…
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In a rocker image, this error usually means the Bioconductor install happened as root but the runtime library paths used by the shiny user …
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Are the sequences aligned (i.e., the same width) before running `TileSeqs()`?
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BTW, I tested with no issue on MacOS ARM on our previous github issue.
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C: DESeq2 Following RSEM
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Answer: Large logFC but somewhat high FDR
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