Showing : Tutorial • reset
6
votes
1
reply
2.9k
views
Tutorial: Accessing Public Genomic Data from Bioconductor
geoquery geometadb sradb Tutorial
updated 16 days ago by • 0 • written 5.9 years ago by 21k
1
vote
3
replies
100
views
Unable to reproduce Pasilla dataset which fresh instalation
tutorial DESeq2 pasilla
9 weeks ago Carina • 0
3
votes
0
replies
231
views
Tutorial: Mass Spectrometry Data Analysis with the Spectra Package
mass spectrometry proteomics metabolomics Tutorial
6 months ago Johannes Rainer ★ 1.9k
5
votes
4
replies
233
views
Comparing DEseq2 and Limma program, results not consistent
limma deseq2 Tutorial
updated 6 months ago by 42k • written 6 months ago by • 0
0
votes
1
reply
84
views
Can I apply tximport to transcript-level estimates obtained using cufflinks (cuffquant and cuffnorm) ??
tximport Cufflink Tutorial
updated 6 months ago by 2.8k • written 6 months ago by • 0
0
votes
1
reply
71
views
Differential expression analysis comparison using more that two variables
deseq2 Tutorial
updated 8 months ago by 2.8k • written 8 months ago by • 0
0
votes
2
replies
206
views
Warning messages: gseaKEGG
clusterProfiler r Tutorial
updated 8 months ago by 2.8k • written 8 months ago by ▴ 10
1
vote
2
replies
104
views
question for "Chapter 24 Zeisel mouse brain (STRT-Seq) in single-cell"
STRT-Seq single-cell tutorial
updated 10 months ago by ★ 26k • written 10 months ago by • 0
0
votes
1
reply
79
views
DESeq2 Experiment Setup
deseq2 Tutorial
updated 10 months ago by 32k • written 10 months ago by • 0
0
votes
0
replies
328
views
Tutorial: [LIBD rstats club] Bioconductor overview
bioconductor libdrstats Tutorial
updated 11 months ago by 1.5k • written 11 months ago by ▴ 870
1
vote
5
replies
175
views
ComplexHeatmap - R Session aborted after calling Heatmap()
software error Tutorial
updated 11 months ago by ▴ 210 • written 11 months ago by • 0
4
votes
0
replies
384
views
Tutorial: How to post Salmon data to GEO for use with tximeta
salmon tximeta Tutorial
12 months ago Michael Love 32k
0
votes
2
replies
99
views
Calculation of Log2 fold change in DEXSeq
DEXSeq log2foldchange Tutorial
updated 12 months ago by 25k • written 12 months ago by • 0
1
vote
2
replies
307
views
Tutorial: selecting result from deseq2
deseq2 Tutorial
updated 12 months ago by 32k • written 12 months ago by • 0
1
vote
8
replies
470
views
BioMart: curl option when using getBM in loop
curl biomart getBM Tutorial
updated 13 months ago by 56k • written 13 months ago by ▴ 10
0
votes
2
replies
701
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 16 months ago by 25k • written 16 months ago by • 0
4
votes
18
replies
3.0k
views
Batch correction by using ComBat function in sva package
deseq2 combat Knownbatcheffect Tutorial
updated 9 weeks ago by • 0 • written 18 months ago by • 0
0
votes
2
replies
136
views
Display number of downloads on a website
DMCHMM Tutorial
updated 19 months ago by 2.6k • written 19 months ago by • 0
0
votes
1
reply
652
views
monocle error at orderCells
scRNA monocle packages Tutorial
19 months ago 444579004 • 0
0
votes
5
replies
196
views
EnsemblGene ID conversion
deseq2 annotation Tutorial
updated 20 months ago by 25k • written 20 months ago by • 0
0
votes
2
replies
2.0k
views
R Version 3.6.1
software error Tutorial
updated 20 months ago by 1.5k • written 20 months ago by • 0
0
votes
0
replies
408
views
Tutorial: Is there any R package for filtering out SNP markers?
annotation Tutorial
21 months ago prodhan82 ▴ 10
0
votes
1
reply
492
views
Tutorial: Differential Methylation Analysis using ChAMP
champ Tutorial
updated 21 months ago by ▴ 220 • written 22 months ago by • 0
1
vote
3
replies
498
views
Error on zlib.h while installing esATAC on Ubutu
software error esATAC zlib.h Ubuntu Tutorial
updated 21 months ago by 25k • written 21 months ago by • 0
0
votes
7
replies
431
views
ATACseqQC shiftGAlignmentsList leads to (all(elementNROWS)>3) is not TRUE error
ATACseqQC ATAC ATACseq software error Tutorial
updated 22 months ago by 13k • written 22 months ago by • 0
0
votes
1
reply
563
views
How to change font size in ClusterProfiler
clusterProfiler font size Tutorial
updated 23 months ago by 42k • written 23 months ago by • 0
1
vote
1
reply
515
views
Tutorial: How to download reference genomes using the RBioMart from ensembl?
BioMart downloading reference genome alignment Tutorial
2.0 years ago jcollidelcs • 0
0
votes
4
replies
323
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 2.1 years ago by 32k • written 2.1 years ago by • 0
16
votes
1
reply
3.7k
views
Tutorial: Updated Support Site Editor
support.bioconductor.org editor markdown updates Tutorial
updated 2.1 years ago by • 0 • written 2.2 years ago by 2.6k
0
votes
0
replies
562
views
Tutorial: Reading csv file in minfi
minfi infinium 450K Tutorial
2.2 years ago lalchungnungabt17 • 0
5
votes
3
replies
358
views
Setting gene expression thresholds for trajectory analysis using Monocle
monocle differential gene expression detectgenes function Tutorial
2.2 years ago S.Webb6 ▴ 40
0
votes
0
replies
492
views
How to extract SNPs from multiple alignment fasta file?
snp multiple sequence alignment fasta Tutorial
updated 2.5 years ago by 25k • written 2.5 years ago by • 0
1
vote
2
replies
348
views
trouble importing data for DEseq2 workflow
deseq2 tximport tximportdata pasilla Tutorial
updated 2.5 years ago by 32k • written 2.5 years ago by • 0
2
votes
1
reply
399
views
GSVA tutorial brainTxDb oligodendrocytic_dn neuronal_dn are same genesets
GSVA tutorial
updated 2.6 years ago by ★ 2.7k • written 2.6 years ago by • 0
1
vote
4
replies
635
views
EdgeR filtering, gene expression, cpm cutoff
edger Tutorial
updated 2.7 years ago by ▴ 400 • written 2.7 years ago by • 0
2
votes
2
replies
413
views
Change legend names when using plotBCV
edger plot Tutorial
updated 2.7 years ago by 42k • written 2.7 years ago by • 0
0
votes
3
replies
629
views
running GEO series matrix file normalization and DEGs in limma
limma normalization Tutorial
updated 2.8 years ago by 56k • written 2.8 years ago by • 0
1
vote
0
replies
740
views
Tutorial: Update gene symbols in GeneSetCollection
gseabase msigdb genesetcollection Tutorial
2.8 years ago t.kuilman 170
0
votes
4
replies
911
views
Tutorial: Importing multiple .h5 files using tximport
tximport Tutorial
updated 3.0 years ago by 13k • written 3.0 years ago by ▴ 10
0
votes
6
replies
940
views
Tutorial: use deseq2 in asthma
deseq2 Tutorial
3.0 years ago krwyaong.ju • 0
1
vote
2
replies
583
views
Beta-matrix - Differential methylation analysis
ChAMP tutorial
3.0 years ago Dave Emir • 0
1
vote
3
replies
559
views
Gene ID Duplicates
deseq2 genetics Tutorial
updated 3.0 years ago by 56k • written 3.0 years ago by • 0
20
votes
10
replies
6.0k
views
Tutorial: Bioconductor on Coursera
mooc Tutorial
updated 3.1 years ago by • 0 • written 5.6 years ago by 6.5k
3
votes
5
replies
1.9k
views
Tutorial: Patch for GEOquery package error: getGEO Error in download.file, cannot open destfile
R GEO geoquery geoquery error message Tutorial
3.2 years ago martinguerrerog89 ▴ 20
0
votes
3
replies
559
views
How to install MethylKit?
methylkit Tutorial
updated 3.4 years ago by 25k • written 3.4 years ago by • 0
0
votes
2
replies
512
views
normalizationFactors DESeq2 package
deseq2 Tutorial
updated 3.5 years ago by 42k • written 3.5 years ago by • 0
4
votes
5
replies
682
views
SC3 gene clusters
SC3 single cell single-cell Tutorial
updated 3.5 years ago by 25k • written 3.5 years ago by ▴ 20
0
votes
3
replies
885
views
Pathview -- Error in korg[ridx, coln] : subscript out of bounds
pathview korg subscript out of bounds Tutorial
updated 3.6 years ago by ★ 1.5k • written 3.6 years ago by • 0
0
votes
0
replies
1.1k
views
Tutorial: Using Subversion to update /devel branch of Bioconductor package
subversion bioc-devel package development usedevel Tutorial
3.7 years ago Bohdan Khomtchouk ▴ 10
2
votes
0
replies
2.0k
views
Tutorial: BoF Bioc2017: Analyzing publicly available cancer genomics data from GTEx and TCGA with Bioconductor
public data TCGA GTEx Tutorial
3.7 years ago shepherl 2.6k
78 results • Page 1 of 2
Recent ...
Replies
Answer: unable to forge custom BSgenome after update by Hervé Pagès 14k
Hi, You need to specify the `circ_seqs` field in your seed file. `forgeBSgenomeDataPkg()` needs to know which sequences are circular …
Comment: How to apply limma-trend or voom to batch corrected single cell data? (non-integ by hainct • 0
Thank you @alun
Comment: EnhancedVolcano plot with colCustom by Neeraja Vegesna ▴ 10
Hi Kevin, It worked once I added `names(keyvals.colour1)[keyvals.colour1 == '#8F8F8F'] <- 'NA'`. ![volcanoplot][1] Thanks a lot for you…
Comment: CUT&Tag differential peak analysis using Diffbind, with pre-calculated normaliza by mwong043 • 0
Thanks Rory. I tried the first method by defining a vector containing the normalisation factors for my samples and it worked. I am just wo…
Comment: EnhancedVolcano plot with colCustom by Kevin Blighe 2.8k
Hi, that's great that it works with a lower number of groups. Can you re-check the logic flow when you are using more groups? *EnhancedVolc…
Votes
mgcv not updating
Answer: How to apply limma-trend or voom to batch corrected single cell data? (non-integ
Answer: How to apply limma-trend or voom to batch corrected single cell data? (non-integ
Answer: How to apply limma-trend or voom to batch corrected single cell data? (non-integ
Comment: EnhancedVolcano plot with colCustom
Awards • All
Scholar to Hervé Pagès 14k
Scholar to Aaron Lun ★ 26k
Popular Question to Luo Weijun ★ 1.5k
Scholar to Gordon Smyth 42k
Teacher to Robert Ivanek ▴ 660
Locations • All
Germany, 9 minutes ago
India, 34 minutes ago
France, 37 minutes ago
France, 49 minutes ago
Spain, 50 minutes ago
Traffic: 426 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