Showing : Tutorial • reset
7
votes
3
replies
3.2k
views
Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
6.1 years ago • updated 12 days ago Sean Davis 21k
1
vote
3
replies
177
views
Unable to reproduce Pasilla dataset which fresh instalation
tutorial DESeq2 pasilla
5 months ago Carina • 0
3
votes
0
replies
335
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
9 months ago Johannes Rainer ★ 1.9k
5
votes
4
replies
415
views
Comparing DEseq2 and Limma program, results not consistent
limma deseq2 Tutorial
updated 10 months ago by 43k • written 10 months ago by • 0
0
votes
1
reply
139
views
Can I apply tximport to transcript-level estimates obtained using cufflinks (cuffquant and cuffnorm) ??
tximport Cufflink Tutorial
updated 10 months ago by 3.2k • written 10 months ago by • 0
0
votes
1
reply
113
views
Differential expression analysis comparison using more that two variables
deseq2 Tutorial
updated 11 months ago by 3.2k • written 11 months ago by • 0
0
votes
2
replies
302
views
Warning messages: gseaKEGG
clusterProfiler r Tutorial
updated 11 months ago by 3.2k • written 11 months ago by ▴ 10
1
vote
2
replies
169
views
question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 13 months ago by ★ 27k • written 13 months ago by • 0
0
votes
1
reply
114
views
DESeq2 Experiment Setup
deseq2 Tutorial
updated 14 months ago by 33k • written 14 months ago by • 0
0
votes
0
replies
434
views
Tutorial: [LIBD rstats club] Bioconductor overview
bioconductor libdrstats Tutorial
updated 15 months ago by 1.5k • written 15 months ago by ▴ 890
1
vote
5
replies
342
views
ComplexHeatmap - R Session aborted after calling Heatmap()
software error Tutorial
updated 15 months ago by ▴ 210 • written 15 months ago by • 0
4
votes
0
replies
503
views
Tutorial: How to post Salmon data to GEO for use with tximeta
salmon tximeta Tutorial
15 months ago Michael Love 33k
0
votes
2
replies
199
views
Calculation of Log2 fold change in DEXSeq
DEXSeq log2foldchange Tutorial
updated 15 months ago by 25k • written 15 months ago by • 0
1
vote
2
replies
411
views
Tutorial: selecting result from deseq2
deseq2 Tutorial
updated 16 months ago by 33k • written 16 months ago by • 0
1
vote
8
replies
1.2k
views
BioMart: curl option when using getBM in loop
curl biomart getBM Tutorial
updated 16 months ago by 57k • written 16 months ago by ▴ 10
0
votes
2
replies
906
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 19 months ago by 25k • written 19 months ago by • 0
4
votes
18
replies
3.9k
views
Batch correction by using ComBat function in sva package
deseq2 combat Knownbatcheffect Tutorial
updated 5 months ago by • 0 • written 21 months ago by • 0
0
votes
2
replies
177
views
Display number of downloads on a website
DMCHMM Tutorial
updated 22 months ago by 2.8k • written 22 months ago by • 0
0
votes
1
reply
861
views
monocle error at orderCells
scRNA monocle packages Tutorial
23 months ago 444579004 • 0
0
votes
5
replies
260
views
EnsemblGene ID conversion
deseq2 annotation Tutorial
updated 23 months ago by 25k • written 23 months ago by • 0
0
votes
2
replies
2.2k
views
R Version 3.6.1
software error Tutorial
updated 23 months ago by 1.5k • written 23 months ago by • 0
0
votes
0
replies
498
views
Tutorial: Is there any R package for filtering out SNP markers?
annotation Tutorial
24 months ago prodhan82 ▴ 10
0
votes
1
reply
603
views
Tutorial: Differential Methylation Analysis using ChAMP
champ Tutorial
updated 2.0 years ago by ▴ 240 • written 2.1 years ago by • 0
1
vote
3
replies
602
views
Error on zlib.h while installing esATAC on Ubutu
software error esATAC zlib.h Ubuntu Tutorial
updated 2.1 years ago by 25k • written 2.1 years ago by • 0
0
votes
7
replies
568
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 2.1 years ago by 13k • written 2.1 years ago by • 0
0
votes
1
reply
644
views
How to change font size in ClusterProfiler
clusterProfiler font size Tutorial
updated 2.2 years ago by 43k • written 2.2 years ago by • 0
1
vote
1
reply
599
views
Tutorial: How to download reference genomes using the RBioMart from ensembl?
BioMart downloading reference genome alignment Tutorial
2.3 years ago jcollidelcs • 0
0
votes
4
replies
419
views
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 2.4 years ago by 33k • written 2.4 years ago by • 0
16
votes
1
reply
4.1k
views
Tutorial: Updated Support Site Editor
support.bioconductor.org editor markdown updates Tutorial
updated 2.4 years ago by • 0 • written 2.5 years ago by 2.8k
0
votes
0
replies
672
views
Tutorial: Reading csv file in minfi
minfi infinium 450K Tutorial
2.4 years ago lalchungnungabt17 • 0
5
votes
3
replies
425
views
Setting gene expression thresholds for trajectory analysis using Monocle
monocle differential gene expression detectgenes function Tutorial
2.5 years ago S.Webb6 ▴ 40
0
votes
0
replies
563
views
How to extract SNPs from multiple alignment fasta file?
snp multiple sequence alignment fasta Tutorial
updated 2.8 years ago by 25k • written 2.8 years ago by • 0
1
vote
2
replies
408
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 2.8 years ago by 33k • written 2.8 years ago by • 0
2
votes
1
reply
467
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 2.9 years ago by ★ 2.7k • written 2.9 years ago by • 0
1
vote
4
replies
761
views
EdgeR filtering, gene expression, cpm cutoff
edger Tutorial
updated 2.9 years ago by ▴ 400 • written 2.9 years ago by • 0
2
votes
2
replies
478
views
Change legend names when using plotBCV
edger plot Tutorial
updated 2.9 years ago by 43k • written 2.9 years ago by • 0
0
votes
3
replies
692
views
running GEO series matrix file normalization and DEGs in limma
limma normalization Tutorial
updated 3.0 years ago by 57k • written 3.0 years ago by • 0
1
vote
0
replies
831
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
3.1 years ago t.kuilman 170
0
votes
4
replies
1.1k
views
Tutorial: Importing multiple .h5 files using tximport
tximport Tutorial
updated 3.2 years ago by 13k • written 3.2 years ago by ▴ 10
0
votes
6
replies
1.0k
views
Tutorial: use deseq2 in asthma
deseq2 Tutorial
3.3 years ago krwyaong.ju • 0
1
vote
2
replies
674
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
3.3 years ago Dave Emir • 0
1
vote
3
replies
651
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 3.3 years ago by 57k • written 3.3 years ago by • 0
20
votes
10
replies
6.3k
views
Tutorial: Bioconductor on Coursera
mooc Tutorial
updated 3.3 years ago by • 0 • written 5.9 years ago by 6.5k
3
votes
5
replies
2.0k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
3.5 years ago martinguerrerog89 ▴ 20
0
votes
3
replies
617
views
How to install MethylKit?
methylkit Tutorial
updated 3.7 years ago by 25k • written 3.7 years ago by • 0
0
votes
2
replies
577
views
normalizationFactors DESeq2 package
deseq2 Tutorial
updated 3.7 years ago by 43k • written 3.7 years ago by • 0
4
votes
5
replies
779
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 3.8 years ago by 25k • written 3.8 years ago by ▴ 20
0
votes
3
replies
1.0k
views
Pathview -- Error in korg[ridx, coln] : subscript out of bounds
pathview korg subscript out of bounds Tutorial
updated 3.8 years ago by ★ 1.5k • written 3.9 years ago by • 0
0
votes
0
replies
1.2k
views
Tutorial: Using Subversion to update /devel branch of Bioconductor package
subversion bioc-devel package development usedevel Tutorial
4.0 years ago Bohdan Khomtchouk ▴ 10
2
votes
0
replies
2.2k
views
Tutorial: BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data TCGA GTEx Tutorial
4.0 years ago shepherl 2.8k
50 results • Page 1 of 1
Recent ...
Replies
Comment: cannot install edgeR on M1 Mac by noname88 • 0
Hi--I recommend seeing the suggestions in response to this post. It solved ALL of my problems with this type of installation! https://sta…
Comment: Using R BioMart getting orthologus genes between two species by Kevin Blighe 3.2k
Then, I think that *biomaRt* may not be what you want, but you tagged it in your post (?) Take a look at the Ensembl REST APIs (in particul…
Answer: Interaction using a single factor model DESeq2 by Michael Love 33k
Unfortunately, I have to save my time to address software related questions. For questions about how to set up your statistical analysis, I…
Comment: Deseq paired samples by Michael Love 33k
Oh if you are interested in comparing FUS vs NEG in the above sample order, you should define `replicate` as `factor(c(1,2,1,2,3,4,3,4))` a…
Answer: [DESeq2] Question regarding experiment design with multiple nesting and variable by Michael Love 33k
*"I would like to compare the different "cell types" against each other while taking into account the "patient" and the "disease" effect."*…
Votes
Answer: problems about installation of package ‘Rhtslib’, ‘Rsamtools’ ,‘GenomicAlignmen
Answer: cannot install edgeR on M1 Mac
Comment: How can I use geom_label_repel with EnhancedVolcano?
Comment: How can I use geom_label_repel with EnhancedVolcano?
Comment: WGCNA coupled with differential expression analysis: question about baseline mod
Awards • All
Teacher to Guido Hooiveld ★ 3.0k
Scholar to Michael Love 33k
Popular Question to Sara • 0
Scholar to Aaron Lun ★ 27k
Popular Question to Gordon Smyth 43k
Locations • All
India, 2 minutes ago
United States, 3 minutes ago
France, 5 minutes ago
United States, 14 minutes ago
Morgantown, 16 minutes ago
Traffic: 588 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6