Showing: differential expression • reset
Search
3
votes
2
answers
75
views
2
answers
How does limma calculate the log2fc?
limma differential expression time-course analysis written 3 days ago by mcfarn1 • 0 • updated 3 days ago by Gordon Smyth ♦ 37k
1
vote
1
answer
102
views
1
answer
How to normalize RNA-seq when 50% genes are DE? (TMM)
rnaseq normalization limma differential expression tmm written 6 weeks ago by natalia_lt • 0 • updated 6 weeks ago by James W. MacDonald ♦ 50k
0
votes
0
answers
109
views
0
answers
Scran: Performing DE after cell-typle identifaction on the corrected and integrated datasets
differential expression scran single-cell mnn_correct written 10 weeks ago by baldissera152 • 0
4
votes
1
answer
122
views
1
answer
Limma - Using removeBatchEffect before differential expression analysis
limma differential expression batch effect written 10 weeks ago by jmoon1194 • 0 • updated 10 weeks ago by James W. MacDonald ♦ 50k
0
votes
0
answers
146
views
0
answers
Using PEER to identify hidden confounders in RNA-seq data (not working)
differential expression rna-seq peer hidden confounders written 4 months ago by rodrigo.duarte88 • 0 • updated 4 months ago by Martin Morgan ♦♦ 23k
0
votes
1
answer
166
views
1
answer
How to handle replicates and treatment conditions in TissueEnrich package
differential expression rna-seq tissueenrich tissue-specific expression written 4 months ago by andrew.oler • 0 • updated 4 months ago by Ashish Jain • 0
1
vote
1
answer
116
views
1
answer
PLAGE method fails in GSVA if an overlap between gene sets and genes in expressions is less than two
gsva differential expression gene set enrichment plage written 4 months ago by krassowski.michal • 0
2
votes
2
answers
334
views
2
answers
Get the countsFromAbundance as limma input
limma deseq2 differential expression tximport written 8 months ago by Darklings • 0 • updated 8 months ago by Gordon Smyth ♦ 37k
15
votes
1
answer
609
views
5 follow
1
answer
ZINB-WaVE + DESeq2 misses low-expressed, single-condition genes that look like they should be markers
deseq2 differential expression rna-seq single cell zinb-wave written 9 months ago by rory.kirchner • 60 • updated 9 months ago by Michael Love ♦ 23k
1
vote
1
answer
247
views
1
answer
Global expression shift using RUVSeq
rnaseq normalization ruvseq differential expression written 10 months ago by Leon • 0 • updated 10 months ago by davide risso • 830
1
vote
1
answer
197
views
1
answer
venDiagram after limma showing more genes after specifying up or down regulated specifically
microarray limma venn diagram differential expression venndiagram written 10 months ago by A • 40 • updated 10 months ago by James W. MacDonald ♦ 50k
4
votes
1
answer
228
views
1
answer
DE analysis when large portion of transcriptome is changed
edger ebseq differential expression rna-seq written 10 months ago by marhabaie • 0 • updated 10 months ago by Aaron Lun • 23k
0
votes
1
answer
337
views
1
answer
Deseq2 problem visualizing gene expression with batch corrected values
visualization limma deseq2 differential expression written 11 months ago by Mbosio85 • 0 • updated 11 months ago by Michael Love ♦ 23k
13
votes
1
answer
982
views
5 follow
1
answer
DESeq2 1.20.0 lfcshrink function
deseq2 differential expression logfoldchange lfcthreshold lfcshrink written 11 months ago by emi.sch • 10 • updated 11 months ago by Michael Love ♦ 23k
1
vote
1
answer
250
views
1
answer
DE analysis of orthologs with varying sequence lengths using RSEM+tximport+DEseq2: normalization for sequence length?
deseq2 differential expression tximport rsem sequence length normalization written 11 months ago by al-ash • 20 • updated 11 months ago by Michael Love ♦ 23k
0
votes
0
answers
184
views
0
answers
pair wise ballgown
differential expression ballgown written 11 months ago by zoe.ward • 0
0
votes
0
answers
221
views
0
answers
Ballgown normalisation... why are still using FPKM?
rnaseq normalization differential expression differential gene expression written 11 months ago by manuelmendoza • 0
1
vote
0
answers
282
views
0
answers
differential expression analysis with big dataset and >500 surrogate variables
sva deseq2 differential expression lrt written 12 months ago by aec • 40
0
votes
1
answer
297
views
1
answer
Interpretation of p-value plot
limma differential expression p values written 12 months ago by karlien.springael • 0 • updated 12 months ago by Gordon Smyth ♦ 37k
5
votes
2
answers
315
views
2
answers
Finding genes respond differently to treatment between many genotype comparison
edger differential expression nested design written 13 months ago by chiayi • 0 • updated 13 months ago by Gordon Smyth ♦ 37k
0
votes
1
answer
241
views
1
answer
interaction model deseq2 specific DE genes
deseq2 differential expression interaction model written 13 months ago by aec • 40 • updated 13 months ago by Michael Love ♦ 23k
6
votes
1
answer
325
views
1
answer
Fitting Gamma GLMs for examining differential expression
edger deseq2 differential expression written 14 months ago by jspmccain • 10 • updated 14 months ago by Ryan C. Thompson ♦ 7.3k
3
votes
1
answer
1.2k
views
1
answer
Justification for collapsing technical replicates in DESeq2
rnaseq deseq2 differential expression replicate written 2.8 years ago by kieranrcampbell • 30 • updated 14 months ago by jovel_juan • 10
7
votes
1
answer
552
views
1
answer
Analysis of pathways using edgeR
rnaseq edger kegg differential expression written 14 months ago by fawazfebin • 30 • updated 14 months ago by Gordon Smyth ♦ 37k
1
vote
1
answer
527
views
1
answer
How to perform time-course differential expression with "erroneous" baseline in edgeR?
timecourse edger differential expression written 15 months ago by Enzo Castillejos • 0 • updated 15 months ago by Gordon Smyth ♦ 37k
<prev • 107 results • page 1 of 5 • next >
Recent...
Replies
Votes
Awards • All »
Locations • All »
  • Walter and Eliza Hall Institute of Medical Research, Melbourne, Australia, 35 minutes ago
  • Cambridge, United Kingdom, 1 hour ago
Content
Help
Access
Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 109 users visited in the last hour