Showing : Tutorial • reset
8
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Batch correction by using ComBat function in sva package
deseq2 combat Knownbatcheffect Tutorial
updated 3.2 years ago by • 0 • written 4.5 years ago by ▴ 10
1
vote
8
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9.1k
views
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
17
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4
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8.9k
views
Tutorial: Updated Support Site Editor
support.bioconductor.org editor markdown updates Tutorial
updated 22 days ago by • 0 • written 5.2 years ago by 3.8k
21
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10
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Tutorial: Bioconductor on Coursera
mooc Tutorial
updated 6.1 years ago by • 0 • written 8.6 years ago by ★ 6.5k
0
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0
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Tutorial: doParallel foreach already exporting variable(s)
doParallel foreach export Tutorial
7.2 years ago solo7773 ▴ 10
7
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2
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Tutorial: Course Material from BioC 2015: Where Software and Biology Connect
bioc2015 course-material Tutorial
updated 8.7 years ago by ★ 8.2k • written 8.7 years ago by ▴ 390
7
votes
5
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views
Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
written 8.9 years ago by 21k
11
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0
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Tutorial: Introduction to Bioconductor for high-throughput sequence analysis
GenomicRanges Annotation RNAseq visualization Tutorial
8.8 years ago Martin Morgan 25k
3
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5
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Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
6.2 years ago martinguerrerog89 ▴ 20
0
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monocle error at orderCells
scRNA monocle packages Tutorial
4.6 years ago 444579004 • 0
8
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4
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Tutorial: Epigenomics RoadMap Project files now accessible via AnnotationHub
AnnotationHub Epigenomics BigData RoadMap Project NIH Tutorial
updated 7.0 years ago by • 0 • written 8.9 years ago by ▴ 390
6
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1
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3.9k
views
Tutorial: Orchestrating a small, parallel, RNA-seq pre-processing workflow using R
rnaseq biocparallel workflows sra Tutorial
8.8 years ago Sean Davis 21k
2
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0
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Tutorial: BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data TCGA GTEx Tutorial
6.7 years ago shepherl 3.8k
3
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0
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Tutorial: dplyr and the GEOmetadb package for mining NCBI GEO metadata
geometadb dplyr Tutorial
8.9 years ago Sean Davis 21k
0
votes
7
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3.7k
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DESeq2 LRT Error: less than one degree of freedom, perhaps full and reduced models are not in the correct order
deseq2 systempiper Tutorial
7.8 years ago musa ▴ 10
7
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0
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Tutorial: New edX "Data analysis for Life Sciences" module: High performance computing for reproducible genomics
annotation genomicranges visualization docker shiny Tutorial
8.1 years ago Vincent J. Carey, Jr. 6.7k
8
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0
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Tutorial: Statistics and Computing in Genome Science (CSAMA) Course Material
rnaseq chipseq visualization metagenomics proteomics Tutorial
8.8 years ago Martin Morgan 25k
0
votes
2
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3.5k
views
R Version 3.6.1
software error Tutorial
updated 4.7 years ago by 1.6k • written 4.7 years ago by • 0
4
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0
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3.4k
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Tutorial: Workflow for low-level analysis of single-cell RNA-seq data
scran scater single cell Tutorial
7.6 years ago Aaron Lun ★ 28k
5
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1
reply
3.2k
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Tutorial: Prototyping An Analysis Pipeline For Lexogen 3'-UTR RNA-seq In Bioconductor
shortread rsubread ensembldb Tutorial
8.0 years ago phil.chapman ▴ 150
0
votes
4
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3.2k
views
Tutorial: Importing multiple .h5 files using tximport
tximport Tutorial
updated 5.9 years ago by ★ 13k • written 6.0 years ago by ▴ 10
0
votes
14
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3.2k
views
Error through importing (project = 'SRP009615') or even to download any BigWig File
recount Tutorial
updated 7.1 years ago by ★ 1.0k • written 7.1 years ago by • 0
6
votes
1
reply
3.1k
views
Tutorial: BoF "Writing papers in Rmarkdown, BiocStyle... (and books, posters)"
biocstyle Rmarkdown Tutorial
6.7 years ago Wolfgang Huber ★ 13k
1
vote
0
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3.1k
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Tutorial: BoF Bioc2017: Infrastructure for efficient storage and processing of large-scale single-cell genomics data
single-cell objectstorage Tutorial
6.7 years ago shepherl 3.8k
7
votes
4
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3.0k
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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
3
votes
8
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3.0k
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Tutorial: "developing" with HDF5Array
hdf5 DelayedArray summarizedexperiment Tutorial
7.2 years ago Vincent J. Carey, Jr. 6.7k
0
votes
2
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2.8k
views
Problems with bioconductor after updating R to 3.6.2
R 3.6.2 update problems with igraph and phangorn update Phyloseq igraph phangorn Tutorial
updated 4.3 years ago by 25k • written 4.3 years ago by • 0
1
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2
replies
2.8k
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Tutorial for RNA-Seq Data Analysis
rnaseq data analysis tutorial workflows differential gene expression
updated 7.0 years ago by ★ 28k • written 7.0 years ago by • 0
1
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4
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2.6k
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EdgeR filtering, gene expression, cpm cutoff
edger Tutorial
updated 5.7 years ago by ▴ 400 • written 5.7 years ago by • 0
0
votes
6
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2.5k
views
Tutorial: use deseq2 in asthma
deseq2 Tutorial
6.0 years ago krwyaong.ju • 0
1
vote
2
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2.3k
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
6.0 years ago Dave Emir • 0
0
votes
2
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2.3k
views
Tutorial: LEA won't run lfmm sequentially and independently on individual environmental variables when d set to 0
LEA lfmm Tutorial
updated 6.9 years ago by • 0 • written 6.9 years ago by • 0
0
votes
3
replies
2.3k
views
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
3
votes
1
reply
2.2k
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
written 3.5 years ago by ★ 2.0k
0
votes
0
replies
2.2k
views
Tutorial: Using Subversion to update /devel branch of Bioconductor package
subversion bioc-devel package development usedevel Tutorial
6.7 years ago Bohdan Khomtchouk ▴ 10
0
votes
1
reply
2.1k
views
Tutorial: Differential Methylation Analysis using ChAMP
champ Tutorial
updated 4.8 years ago by ▴ 270 • written 4.8 years ago by • 0
1
vote
3
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2.1k
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 6.0 years ago by 65k • written 6.0 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
4
votes
0
replies
2.0k
views
Tutorial: How to post Salmon data to GEO for use with tximeta
salmon tximeta Tutorial
4.0 years ago Michael Love 41k
1
vote
1
reply
2.0k
views
Tutorial: How to download reference genomes using the RBioMart from ensembl?
BioMart downloading reference genome alignment Tutorial
5.0 years ago jcollidelcs • 0
1
vote
2
replies
1.9k
views
Tutorial: selecting result from deseq2
deseq2 Tutorial
updated 4.1 years ago by 41k • written 4.1 years ago by • 0
1
vote
1
reply
1.9k
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
written 5.8 years ago by ▴ 170
2
votes
3
replies
1.8k
views
Limma voom mechanism
rnaseq limma limma-voom Tutorial
updated 7.1 years ago by ★ 28k • written 7.1 years ago by • 0
1
vote
3
replies
1.8k
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
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 • 0
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
votes
0
replies
1.8k
views
Tutorial: Reading csv file in minfi
minfi infinium 450K Tutorial
5.2 years ago lalchungnungabt17 • 0
0
votes
7
replies
1.7k
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 4.8 years ago by ★ 13k • written 4.8 years ago by • 0
0
votes
0
replies
1.7k
views
Tutorial: [LIBD rstats club] Bioconductor overview
bioconductor libdrstats Tutorial
updated 4.0 years ago by 1.6k • written 4.0 years ago by ★ 1.0k
5
votes
4
replies
1.7k
views
Is there any tutorial to perform Mouse/Human Transcriptome microarrays 1.0 ?
mta10 tutorial affy
updated 8.5 years ago by 65k • written 8.5 years ago by ▴ 40
50 results • Page 1 of 1
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Comment: Error in champ.load(): The following specified files do not exist by Basti ▴ 760
The error stems from the Basename column, please see solution here : https://support.bioconductor.org/p/p132482/
Comment: FilterByExpr low counts with small sample size by Gordon Smyth 50k
As always, it helps to see code. Are you running `voom` or `voomLmFit`? Did you run `normLibSizes()` in edgeR prior to `voom`? Are you star…
Comment: Batch correction and repeated measures by Gordon Smyth 50k
In your code, it was clear that `expr.mat` was a matrix rather than a DGEList, so it has to be a count matrix. If you have a DGEList object…
Comment: Methylation Analysis experiment design using Limma by Gordon Smyth 50k
I don't analyse methylation arrays so cannot advise on specific limma settings for that type of data. Please follow the advice of the methy…
Comment: Light difference when using coef vs omit a group when compare 3 groups. by Chris • 0
Hi Gordon, thank you so much for further guidance! I discussed this issue with psychology doctor who treat Alzheimer patients and they don'…
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Answer: How many of my genes from my gene list are in each KEGG pathway?
Comment: Light difference when using coef vs omit a group when compare 3 groups.
DESeq2 variance transformation error and plot dispersion Estimate
A: DESeq2 variance transformation error and plot dispersion Estimate
ensembl to hgnc symbols creates duplicates
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