0
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1
reply
975
views
GSVA exceeds 1
GSVA
updated 2.3 years ago by ★ 3.4k • written 2.3 years ago by • 0
0
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0
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727
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Rsubread subjunc reporting 255 kb introns with exon limits mapping to A-rich region
Rsubread
updated 2.3 years ago by 53k • written 2.3 years ago by • 0
0
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0
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HeatPlot - Genes selections
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2.3 years ago ruba-mahmoud • 0
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2
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2.3 years ago alia.sinqua • 0
1
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1
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1.2k
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results after deseq2 not showing gene ids and gene names but they are present in dds object
DESeq2
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
0
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3
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1.5k
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DESeq2 not full rank with paired patient samples and one control cohort
DESeq2
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
1
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0
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News: News: BioCAsia2023 Abstract Submission & Registration Now Open!
Events BioCAsia Conference
2.3 years ago Maria Doyle ▴ 110
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2
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2.1k
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Error: insufficient numeric precision during Log fold change shrinkage with apeglm
apeglm
updated 2.3 years ago by 43k • written 2.4 years ago by • 0
0
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3
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RNAseq (Deseq2 and Dexseq2) analysis on two time points with expected same effect
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updated 2.3 years ago by ★ 1.9k • written 2.3 years ago by • 0
0
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3
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2.2k
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Is logNormCounts log2 normalised counts as default?
scuttle scater
updated 2.3 years ago by ★ 5.0k • written 2.3 years ago by • 0
0
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1
reply
865
views
Is it possible to combine count gene expression data coming from one sequencing technology (RNA seq) with intensity gene expression data coming from …
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updated 2.3 years ago by ★ 5.0k • written 2.3 years ago by • 0
1
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6
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Limma dispersed distribution of log fold change
limma
written 2.3 years ago by • 0
1
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4
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1.7k
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How to find differentially expressed proteins from multiple conditions (>2) using proDA?
Proteomics proDA MultipleComparison
2.3 years ago t.b.n.nguyen-9 • 0
0
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1
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1.3k
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How to properly compare the group-specific samples using DEseq2
DESeq2
updated 2.3 years ago by ★ 1.4k • written 2.3 years ago by • 0
0
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14
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Error while preprocessing raw data from methylation array using minfi package
minfi
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0
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0
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1.0k
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NAs in tabular output from DNAcopy
Bioconductor DNAcopy
2.3 years ago NewtoBioconductor • 0
5
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13
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Does countsFromAbundance="lengthScaledTPM" produce un-normalized counts?
tximport DESeq2
updated 2.3 years ago by 43k • written 2.3 years ago by • 0
0
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1
reply
985
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Sample size estimation for RNAseq experiment with more than 2 conditions
SSPA ssizeRNA RnaSeqSampleSize
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
0
votes
1
reply
846
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Is it possible to use pre-ranked list in EGSEA?
EGSEA EGSEAdata EGSEA123 DifferentialExpression
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
2
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4
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2.1k
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Handle zero effective gene length when tximport RSEM results
tximport edgeR
updated 2.3 years ago by 43k • written 2.4 years ago by ▴ 10
0
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5
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1.6k
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How to use contrast with multiple treatments?
RNASeqdataanalysis DESeq2
updated 2.3 years ago by ★ 1.4k • written 2.3 years ago by • 0
1
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0
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888
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Differential abundance analysis of phosphoproteomics data with multiple time points and conditions
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2.3 years ago svlachavas ▴ 840
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0
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Tutorial: Read data file containing both counts and annotation into edgeR
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2.3 years ago Gordon Smyth 53k
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2
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Two EPIC Methylation Array Analysis Questions
minfiDataEPIC minfi
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1
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1.4k
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Error retrieving cytobands from UCSC
biovizBase biovi
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0
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2
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apply clusterProfiler::simplify on merge_result list
clusterProfiler
2.4 years ago • updated 2.3 years ago Valéria • 0
0
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1
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1.1k
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Speeding up large scale scRNAseq analyses in R and improve memory
scran
updated 2.4 years ago by ★ 5.0k • written 2.4 years ago by • 0
0
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1
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Samples have been merged or lost during counting. Check for duplicate bam files. DiffBind dbacount
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2.4 years ago Mark ▴ 10
2
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2
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1.7k
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DESeq2 results - Annotating and exporting results
DESeq2
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
3
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7
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DESeq2 alternative hypyothesis: testing for genes NOT significantly downregulated
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2.4 years ago casco ▴ 10
2
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7
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5.4k
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EdgeR glmLRT vs glmQLFTest
edgeR DifferentialExpression
updated 2.3 years ago by • 0 • written 4.7 years ago by ▴ 20
1
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2
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DiffBind plot.profile y-axis unit and individual locus value on the heatmap
DiffBind
2.4 years ago Junsik • 0
1
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0
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Job: EMBL-EBI Data resources: Functional Genomics and Single Cell Biology Team Leader
JobPosting
2.4 years ago Wolfgang Huber ★ 13k
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4
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983
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BioNero - problem with module_trait_cor function
BioNERO
2.4 years ago matevz.likar • 0
0
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1
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1.0k
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SVA for MatrixeQTL - which "variable of interest"?
matrixeqtl sva
updated 2.4 years ago by 68k • written 2.4 years ago by • 0
0
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9
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1.8k
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DESeq2: How to estimate effects of one factor controlling for other factors?
DESeq2
2.4 years ago mjd275 • 0
1
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8
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Significantly regulated genes produced by only a few affected samples
deseq2
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0
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9
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How long does it usually take to complete dream() from start to finish?
variancePartition mixedmodel dream
2.4 years ago hayleyw • 0
3
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4
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Protein differential Expression analysis
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14
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ChIPpeakAnno: S.lycopersicum annotation missing
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2
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12
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3.0k
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P-value inflation?
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1
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3
replies
1.3k
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Merging Methylation data (M-values) with phenotypic data
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0
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2
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931
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DiffBind error
DiffBind
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0
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0
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850
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biomaRt
2.4 years ago ali.oghabian • 0
1
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2
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1.4k
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DESeq2 batch design
DESeq2
updated 2.4 years ago by ★ 1.4k • written 2.4 years ago by ▴ 10
2
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2
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1000
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Broken UNITE 9.0 link (General FASTA Release)
dada2 UNITE
2.4 years ago GlycineMax • 0
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4
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1.3k
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running Bioconductor Docker images only works with versions <= 3.15
Bioconductor
2.4 years ago patrick.turko • 0
0
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1
reply
866
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TOMsimilarityFromExpr the returned matrix has NaN values except for diagonal 1
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updated 2.4 years ago by ★ 5.0k • written 2.4 years ago by • 0
0
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1
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868
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Package "Netboost" is an Unix-only package, how can I install it in R?
Bioconductor netboost
updated 2.4 years ago by ★ 5.0k • written 2.4 years ago by • 0
0
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0
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925
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Try to understand better how to set out an effective sample size within the MetagenomSeq package in microbiome ?
Metagenomics metagenomeSeq microbiome phyloseq microbiomeDataSets
2.4 years ago Mohamed ▴ 30
46,704 results • Page 44 of 935
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Dear Luca, This is a very plausible behavior caused by **read assignment ambiguity** due to **overlapping gene coordinates** (specifical…
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