Showing : Tutorial • reset
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Pathview -- Error in korg[ridx, coln] : subscript out of bounds
pathview korg subscript out of bounds Tutorial
updated 6.6 years ago by ★ 1.6k • written 6.6 years ago by • 0
0
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7
replies
3.7k
views
DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2 systempiper Tutorial
7.9 years ago musa ▴ 10
3
votes
8
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3.0k
views
Tutorial: "developing" with HDF5Array
hdf5 DelayedArray summarizedexperiment Tutorial
7.3 years ago • updated 7.2 years ago Vincent J. Carey, Jr. 6.7k
1
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8
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9.3k
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BioMart: curl option when using getBM in loop
curl biomart getBM Tutorial
updated 4.1 years ago by 65k • written 4.1 years ago by ▴ 10
7
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2
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views
Tutorial: Course Material from BioC 2015: Where Software and Biology Connect
bioc2015 course-material Tutorial
updated 8.8 years ago by ★ 8.2k • written 8.8 years ago by ▴ 390
2
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2
replies
1.3k
views
Change legend names when using plotBCV
edger plot Tutorial
updated 5.7 years ago by 50k • written 5.7 years ago by • 0
8
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18
replies
12k
views
Batch correction by using ComBat function in sva package
deseq2 combat Knownbatcheffect Tutorial
updated 3.2 years ago by • 0 • written 4.6 years ago by ▴ 10
2
votes
5
replies
1.6k
views
Differential Gene Expression
deseq2 bioinformatics rna-seq Tutorial
updated 7.6 years ago by 42k • written 7.6 years ago by ▴ 10
0
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1
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1.5k
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New to mass spec data analysis
data analysis xcms Tutorial
updated 7.1 years ago by 50k • written 7.1 years ago by • 0
1
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3
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1.9k
views
Error on zlib.h while installing esATAC on Ubutu
software error esATAC zlib.h Ubuntu Tutorial
updated 4.8 years ago by 25k • written 4.8 years ago by • 0
1
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2
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2.8k
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Tutorial for RNA-Seq Data Analysis
rnaseq data analysis tutorial workflows differential gene expression
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
0
votes
5
replies
1.2k
views
EnsemblGene ID conversion
deseq2 annotation Tutorial
updated 4.7 years ago by 25k • written 4.7 years ago by • 0
0
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2
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1.4k
views
Error in GRanges strand input
GRanges Tutorial
updated 7.0 years ago by 25k • written 7.1 years ago by • 0
0
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2
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2.4k
views
Tutorial: LEA won't run lfmm sequentially and independently on individual environmental variables when d set to 0
LEA lfmm Tutorial
updated 7.0 years ago by • 0 • written 7.0 years ago by • 0
1
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2
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2.0k
views
Tutorial: selecting result from deseq2
deseq2 Tutorial
updated 4.1 years ago by 42k • written 4.1 years ago by • 0
3
votes
3
replies
1.7k
views
Calculation of Log2 fold change in DEXSeq
DEXSeq log2foldchange Tutorial
updated 2.7 years ago by ▴ 20 • written 4.1 years ago by ▴ 20
1
vote
2
replies
1.6k
views
Cannot read plink files correctly
snprelate Tutorial
updated 6.9 years ago by ▴ 30 • written 6.9 years ago by • 0
1
vote
5
replies
2.1k
views
ComplexHeatmap - R Session aborted after calling Heatmap()
software error Tutorial
updated 4.0 years ago by ▴ 260 • written 4.0 years ago by • 0
5
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4
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1.7k
views
Is there any tutorial to perform Mouse/Human Transcriptome microarrays 1.0 ?
mta10 tutorial affy
updated 8.6 years ago by 65k • written 8.6 years ago by ▴ 40
0
votes
1
reply
653
views
DESeq2 Experiment Setup
deseq2 Tutorial
updated 4.0 years ago by 42k • written 4.0 years ago by • 0
1
vote
2
replies
915
views
question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 3.9 years ago by ★ 28k • written 3.9 years ago by • 0
0
votes
2
replies
1.3k
views
Warning messages: gseaKEGG
clusterProfiler r Tutorial
updated 3.7 years ago by ★ 3.9k • written 3.7 years ago by ▴ 30
0
votes
1
reply
738
views
Differential expression analysis comparison using more that two variables
deseq2 Tutorial
updated 3.7 years ago by ★ 3.9k • written 3.7 years ago by • 0
7
votes
4
replies
3.1k
views
Comparing DEseq2 and Limma program, results not consistent
limma deseq2 Tutorial
updated 3.6 years ago by 50k • written 3.6 years ago by • 0
1
vote
3
replies
1.2k
views
Unable to reproduce Pasilla dataset which fresh instalation
tutorial DESeq2 pasilla
3.2 years ago Carina • 0
1
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1
reply
1.1k
views
Bioinformatics exercises for beginner
beginner Bioconductor tutorial examples
updated 2.2 years ago by 50k • written 2.2 years ago by • 0
21
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10
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8.7k
views
Tutorial: Bioconductor on Coursera
mooc Tutorial
updated 6.1 years ago by • 0 • written 8.7 years ago by ★ 6.5k
1
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1
reply
1.5k
views
Is there any R package for filtering out SNP markers?
Tutorial annotation
updated 2.6 years ago by ★ 3.9k • written 4.8 years ago by ▴ 20
4
votes
5
replies
1.8k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 6.5 years ago by 25k • written 6.5 years ago by ▴ 20
0
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2
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1.4k
views
normalizationFactors DESeq2 package
deseq2 Tutorial
updated 6.5 years ago by 50k • written 6.5 years ago by • 0
0
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3
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1.6k
views
How to install MethylKit?
methylkit Tutorial
updated 6.4 years ago by 25k • written 6.4 years ago by • 0
3
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5
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5.0k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
6.3 years ago martinguerrerog89 ▴ 20
1
vote
3
replies
2.1k
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 6.1 years ago by 65k • written 6.1 years ago by • 0
1
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2
replies
2.4k
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
6.1 years ago Dave Emir • 0
0
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6
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2.6k
views
Tutorial: use deseq2 in asthma
deseq2 Tutorial
6.0 years ago krwyaong.ju • 0
0
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4
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3.3k
views
Tutorial: Importing multiple .h5 files using tximport
tximport Tutorial
updated 6.0 years ago by ★ 13k • written 6.0 years ago by ▴ 10
1
vote
1
reply
1.6k
views
Find Intron Length from Annotation File?
annotation arabidopsis thaliana Tutorial
updated 8.2 years ago by 25k • written 8.2 years ago by • 0
0
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3
replies
1.5k
views
running GEO series matrix file normalization and DEGs in limma
limma normalization Tutorial
updated 5.8 years ago by 65k • written 5.8 years ago by • 0
1
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4
replies
2.6k
views
EdgeR filtering, gene expression, cpm cutoff
edger Tutorial
updated 5.7 years ago by ▴ 400 • written 5.7 years ago by • 0
2
votes
1
reply
1.2k
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 5.6 years ago by ★ 3.3k • written 5.7 years ago by ▴ 10
2
votes
3
replies
1.2k
views
Adapting old Workshop to recent changes of the Limma package
limma microarray tutorial
updated 8.1 years ago by ★ 28k • written 8.1 years ago by ▴ 40
1
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2
replies
1.2k
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 5.6 years ago by 42k • written 5.6 years ago by • 0
0
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14
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3.2k
views
Error through importing (project = 'SRP009615') or even to download any BigWig File
recount Tutorial
updated 7.2 years ago by ★ 1.0k • written 7.2 years ago by • 0
2
votes
3
replies
1.9k
views
Limma voom mechanism
rnaseq limma limma-voom Tutorial
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
0
votes
1
reply
1.8k
views
How to change font size in ClusterProfiler
clusterProfiler font size Tutorial
updated 5.0 years ago by 50k • written 5.0 years ago by ▴ 10
0
votes
2
replies
872
views
Display number of downloads on a website
DMCHMM Tutorial
updated 4.7 years ago by 3.9k • written 4.7 years ago by • 0
0
votes
1
reply
2.2k
views
Tutorial: Differential Methylation Analysis using ChAMP
champ Tutorial
updated 4.8 years ago by ▴ 280 • written 4.9 years ago by • 0
0
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0
replies
1.8k
views
Tutorial: Reading csv file in minfi
minfi infinium 450K Tutorial
5.2 years ago lalchungnungabt17 • 0
8
votes
4
replies
4.4k
views
Tutorial: Epigenomics RoadMap Project files now accessible via AnnotationHub
AnnotationHub Epigenomics BigData RoadMap Project NIH Tutorial
updated 7.0 years ago by • 0 • written 9.0 years ago by ▴ 390
7
votes
5
replies
6.1k
views
Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
written 8.9 years ago by 21k
50 results • Page 1 of 1
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Answer: error in limma , contrast.matrix Number of rows of contrast matrix must match nu by James W. MacDonald 65k
I doubt you have that many contrasts. I think that is probably the number of rows. What does `dim(fit)` return (and `head(fit$coef)`)?
Answer: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
If you fit a cell means model (without an intercept), you will have to construct contrasts using `makeContrasts` and fit them using `contra…
Comment: Memory errors using read.bismark? by Juan Higareda • 0
Thanks a lot Peter, We solved the problem, IT had implemented a policy of RAM usage that started a conflict with any RAM-hungry process, m…
Answer: meffil.snp.concordance by James W. MacDonald 65k
This support site is meant to help people with technical questions about Bioconductor packages. The `meffil` package is not Bioconductor, n…
Answer: minfi latest update for EPIC V2 chip by James W. MacDonald 65k
Zuguang Gu submitted both of those packages as part of the current release, and I submitted a PR for `minfi` so it will now distinguish the…
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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
Comment: Help with running egsea()
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