Showing : Tutorial • reset
17
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Tutorial: Updated Support Site Editor
support.bioconductor.org editor markdown updates Tutorial
updated 4 months ago by • 0 • written 5.5 years ago by 3.9k
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0
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590
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News: Include your Bioconductor tutorial in Smörgåsbord 2023, May 22-26!
Training Bioconductor Event Community Tutorial
15 months ago Maria Doyle ▴ 70
1
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1
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1.1k
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Bioinformatics exercises for beginner
beginner Bioconductor tutorial examples
updated 2.4 years ago by 51k • written 2.4 years ago by • 0
1
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1
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1.6k
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Is there any R package for filtering out SNP markers?
Tutorial annotation
updated 2.8 years ago by ★ 4.0k • written 5.0 years ago by ▴ 20
7
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5
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6.4k
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Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
written 9.2 years ago by 21k
1
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3
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1.3k
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Unable to reproduce Pasilla dataset which fresh instalation
tutorial DESeq2 pasilla
3.5 years ago Carina • 0
3
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1
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2.4k
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Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
written 3.8 years ago by ★ 2.1k
7
votes
4
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3.4k
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Comparing DEseq2 and Limma program, results not consistent
limma deseq2 Tutorial
updated 3.8 years ago by 51k • written 3.8 years ago by • 0
0
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1
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984
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Can I apply tximport to transcript-level estimates obtained using cufflinks (cuffquant and cuffnorm) ??
tximport Cufflink Tutorial
updated 3.8 years ago by ★ 4.0k • written 3.8 years ago by • 0
0
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1
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788
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Differential expression analysis comparison using more that two variables
deseq2 Tutorial
updated 3.9 years ago by ★ 4.0k • written 3.9 years ago by • 0
0
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2
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1.4k
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Warning messages: gseaKEGG
clusterProfiler r Tutorial
updated 3.9 years ago by ★ 4.0k • written 4.0 years ago by ▴ 30
1
vote
2
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991
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question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 4.1 years ago by ★ 28k • written 4.1 years ago by • 0
0
votes
1
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702
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DESeq2 Experiment Setup
deseq2 Tutorial
updated 4.2 years ago by 42k • written 4.2 years ago by • 0
0
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0
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1.8k
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Tutorial: [LIBD rstats club] Bioconductor overview
bioconductor libdrstats Tutorial
updated 4.2 years ago by 1.6k • written 4.2 years ago by ★ 1.1k
1
vote
5
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2.3k
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ComplexHeatmap - R Session aborted after calling Heatmap()
software error Tutorial
updated 4.2 years ago by ▴ 280 • written 4.2 years ago by • 0
4
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0
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2.2k
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Tutorial: How to post Salmon data to GEO for use with tximeta
salmon tximeta Tutorial
4.3 years ago Michael Love 42k
3
votes
3
replies
1.8k
views
Calculation of Log2 fold change in DEXSeq
DEXSeq log2foldchange Tutorial
updated 2.9 years ago by ▴ 20 • written 4.3 years ago by ▴ 20
1
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2
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2.1k
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Tutorial: selecting result from deseq2
deseq2 Tutorial
updated 4.3 years ago by 42k • written 4.3 years ago by • 0
1
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8
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9.9k
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BioMart: curl option when using getBM in loop
curl biomart getBM Tutorial
updated 4.3 years ago by 66k • written 4.4 years ago by ▴ 10
0
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2
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3.0k
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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 4.6 years ago by 25k • written 4.6 years ago by • 0
8
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18
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13k
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Batch correction by using ComBat function in sva package
deseq2 combat Knownbatcheffect Tutorial
updated 3.4 years ago by • 0 • written 4.8 years ago by ▴ 10
0
votes
2
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927
views
Display number of downloads on a website
DMCHMM Tutorial
updated 4.9 years ago by 3.9k • written 4.9 years ago by • 0
0
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1
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4.8k
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monocle error at orderCells
scRNA monocle packages Tutorial
4.9 years ago 444579004 • 0
0
votes
5
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1.3k
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EnsemblGene ID conversion
deseq2 annotation Tutorial
updated 4.9 years ago by 25k • written 4.9 years ago by • 0
0
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2
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3.7k
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R Version 3.6.1
software error Tutorial
updated 5.0 years ago by 1.6k • written 5.0 years ago by • 0
0
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1
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2.3k
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Tutorial: Differential Methylation Analysis using ChAMP
champ Tutorial
updated 5.1 years ago by ▴ 290 • written 5.1 years ago by • 0
1
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3
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2.0k
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Error on zlib.h while installing esATAC on Ubutu
software error esATAC zlib.h Ubuntu Tutorial
updated 5.1 years ago by 25k • written 5.1 years ago by • 0
0
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7
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1.9k
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ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 5.1 years ago by ★ 13k • written 5.1 years ago by • 0
0
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1
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2.0k
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How to change font size in ClusterProfiler
clusterProfiler font size Tutorial
updated 5.2 years ago by 51k • written 5.2 years ago by ▴ 10
1
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1
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2.2k
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Tutorial: How to download reference genomes using the RBioMart from ensembl?
BioMart downloading reference genome alignment Tutorial
5.3 years ago jcollidelcs • 0
0
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4
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1.6k
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How to analyze RNAseq data with multiple treatment groups and each subject has pre and post-treatment measures using deseq2/edger/limma?
deseq2 limma edger Tutorial
updated 5.4 years ago by 42k • written 5.4 years ago by • 0
0
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0
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1.9k
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Tutorial: Reading csv file in minfi
minfi infinium 450K Tutorial
5.4 years ago lalchungnungabt17 • 0
5
votes
3
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1.5k
views
Setting gene expression thresholds for trajectory analysis using Monocle
monocle differential gene expression detectgenes function Tutorial
5.5 years ago S.Webb6 ▴ 40
0
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0
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1.5k
views
How to extract SNPs from multiple alignment fasta file?
snp multiple sequence alignment fasta Tutorial
updated 5.8 years ago by 25k • written 5.8 years ago by • 0
1
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2
replies
1.3k
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 5.8 years ago by 42k • written 5.8 years ago by • 0
2
votes
1
reply
1.2k
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GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 5.9 years ago by ★ 3.3k • written 5.9 years ago by ▴ 10
1
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4
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2.8k
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EdgeR filtering, gene expression, cpm cutoff
edger Tutorial
updated 5.9 years ago by ▴ 400 • written 5.9 years ago by • 0
2
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2
replies
1.4k
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Change legend names when using plotBCV
edger plot Tutorial
updated 6.0 years ago by 51k • written 6.0 years ago by • 0
0
votes
3
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1.6k
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running GEO series matrix file normalization and DEGs in limma
limma normalization Tutorial
updated 6.0 years ago by 66k • written 6.0 years ago by • 0
1
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1
reply
2.0k
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
written 6.1 years ago by ▴ 170
0
votes
4
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3.4k
views
Tutorial: Importing multiple .h5 files using tximport
tximport Tutorial
updated 6.2 years ago by ★ 13k • written 6.2 years ago by ▴ 10
0
votes
6
replies
2.7k
views
Tutorial: use deseq2 in asthma
deseq2 Tutorial
6.3 years ago krwyaong.ju • 0
1
vote
2
replies
2.6k
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
6.3 years ago Dave Emir • 0
1
vote
3
replies
2.2k
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 6.3 years ago by 66k • written 6.3 years ago by • 0
21
votes
10
replies
8.9k
views
Tutorial: Bioconductor on Coursera
mooc Tutorial
updated 6.3 years ago by • 0 • written 8.9 years ago by ★ 6.5k
3
votes
5
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5.2k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
6.5 years ago martinguerrerog89 ▴ 20
0
votes
3
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1.7k
views
How to install MethylKit?
methylkit Tutorial
updated 6.7 years ago by 25k • written 6.7 years ago by • 0
0
votes
2
replies
1.5k
views
normalizationFactors DESeq2 package
deseq2 Tutorial
updated 6.7 years ago by 51k • written 6.7 years ago by • 0
4
votes
5
replies
2.0k
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 6.8 years ago by 25k • written 6.8 years ago by ▴ 20
0
votes
3
replies
2.5k
views
Pathview -- Error in korg[ridx, coln] : subscript out of bounds
pathview korg subscript out of bounds Tutorial
updated 6.8 years ago by ★ 1.6k • written 6.9 years ago by • 0
50 results • Page 1 of 1
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Comment: 'path' must be string by James W. MacDonald 66k
Yes. We already knew that from the error message, and I told you that in my previous email. The point wasn't to figure out *where* the err…
Comment: 'path' must be string by cpierce2 • 0
I ran the debugger and this is the line that causes the error: ``` if (any(startsWith(pkcData[["RTS_ID"]][1L], "RTS")) & any(startsWith(pr…
Comment: Generating surrogate variables across multiple variables of interest by Robert • 0
Yes, we have several biomarkers, and a proteomic set, so we are characterizing each biomarker by it's proteomic association(s). The use for…
Comment: Error running tximeta by Guido Hooiveld ★ 4.0k
FYI (since I just finalized a run with `salmon`). For each sample (`.`) an output folder is created that contains 3 files (`cmd_info.json`…
Comment: Error running tximeta by Michael Love 42k
Tximeta uses the full directory. There are files that give the key information about the transcriptome. It's not a good idea to selectively…
Votes
Question: Deconvolution Methods on RNA-Seq Data (Mixed cell types)
Answer: Understanding how to contrast two treatments in DESeq2
Answer: Understanding how to contrast two treatments in DESeq2
Cannot extract TxFeatures for a defined GRanges object
Limma time series spline help
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