Showing : transcriptomics • reset
3
votes
2
replies
189
views
How to extract counts from a DESeq dataset ordered by a specific sample?
DESeq2 Transcriptomics
24 days ago Anita ▴ 10
3
votes
5
replies
1.3k
views
DESeq2, time-course interpretation
Transcriptomics TimeCourse DESeq2
updated 9 months ago by 41k • written 9 months ago by • 0
0
votes
4
replies
725
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
11 months ago sreeshmaraj72 • 0
0
votes
1
reply
337
views
Time change in expression vs time change in phenotype
Transcriptomics ExpressionData DESeq2
updated 12 months ago by 41k • written 12 months ago by • 0
4
votes
5
replies
1.6k
views
EnhancedVolcano - Unable to customize the length of Connectors to Gene Labels
Transcriptomics EnhancedVolcano
updated 12 months ago by ★ 3.9k • written 12 months ago by ▴ 20
4
votes
8
replies
1.3k
views
DESEQ2 - What is the recommended workflow in terms of pre-filtering and counts normalization?
DESeq2 Transcriptomics
updated 12 months ago by ★ 13k • written 12 months ago by ▴ 20
0
votes
3
replies
725
views
Understanding edgeR differential expression results
Transcriptomics edgeR DifferentialExpression RNASeqData RNASeq
updated 14 months ago by 50k • written 14 months ago by • 0
0
votes
1
reply
701
views
Is it possible to convert transcript-level to gene-level dataset to use it in DESeq2 ?
DESeq2 Transcriptomics tximport deseq txi
updated 15 months ago by ★ 1.5k • written 15 months ago by ▴ 10
0
votes
1
reply
1.2k
views
Variance stabilization transformation (VST), blind=TRUE
DESeq2 Transcriptomics RNASeq
updated 15 months ago by 41k • written 15 months ago by • 0
0
votes
0
replies
513
views
EdgeR without replication
Transcriptomics
16 months ago kuttibiotech2009 • 0
0
votes
0
replies
537
views
Analysis of TIF-seq data to generate transcription start sites (TSS) and poly(A) site (PAS) clusters
Transcriptomics SequencingData
17 months ago Rom • 0
0
votes
0
replies
583
views
Job: EPA Postdoctoral Fellowship in Bioinformatics and Computational Toxicology
MethylSeq Transcriptomics Pathways Epigenetics RNASeq
17 months ago whduke • 0
0
votes
2
replies
679
views
Questions about `collapseReplicates` function in DESeq2
DESeq2 Transcriptomics
18 months ago Yijing • 0
0
votes
0
replies
509
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
19 months ago Julieta • 0
2
votes
1
reply
1.5k
views
Understanding tximport working with salmon outputs
Transcriptomics tximport
updated 19 months ago by ★ 4.0k • written 19 months ago by ▴ 10
0
votes
3
replies
955
views
DESeq2 - transcript length correction necessary when quantifying reads from ends of transcripts?
Transcriptomics DESeq2
21 months ago marius.wenzel • 0
4
votes
6
replies
1.4k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
23 months ago mohammedtoufiq91 ▴ 10
1
vote
3
replies
1.0k
views
Identifying DEG between development stages
plant Transcriptomics DESeq2 r
updated 2.1 years ago by ▴ 770 • written 2.1 years ago by • 0
2
votes
5
replies
1.4k
views
DESeq2 with baseline correction for gene expression differences
DESeq2 edgeR Transcriptomics
updated 2.1 years ago by 41k • written 2.1 years ago by • 0
2
votes
2
replies
803
views
Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
2.5 years ago • updated 11 months ago diangomaiga • 0
1
vote
2
replies
1.3k
views
Not many DE genes using glmTreat
EdgeR Bioinformatics Transcriptomics Quantseq
2.7 years ago Barista • 0
0
votes
0
replies
888
views
Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
2.7 years ago lianov • 0
0
votes
0
replies
807
views
Job: [apply by 8/15] PhD scholarship on functional and evolutionary genomics
JobPosting Transcriptomics GenomicVariation
2.8 years ago marie • 0
0
votes
2
replies
937
views
Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
3.0 years ago Kate • 0
0
votes
0
replies
918
views
Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
3.1 years ago 2323982403 ▴ 60
0
votes
1
reply
749
views
Metatranscriptomics DESeq2 multifactorial sampling
Transcriptomics DESeq2
updated 3.1 years ago by 41k • written 3.1 years ago by • 0
0
votes
0
replies
928
views
Job: Bioinformatician at MiroBio, Oxford, UK
Transcriptomics Bioconductor Statistics Job Biocon
3.1 years ago m.jackson • 0
5
votes
5
replies
2.4k
views
analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 3.2 years ago by 65k • written 3.2 years ago by ▴ 10
0
votes
0
replies
915
views
Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
3.3 years ago Steve Lianoglou ★ 13k
1
vote
1
reply
887
views
NanoStringDiff Not Recognized as Numeric
Bioconductor Transcriptomics NanoStringDiff
updated 3.5 years ago by 1.6k • written 3.5 years ago by ▴ 10
0
votes
0
replies
686
views
Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
4.1 years ago raquelponti • 0
1
vote
0
replies
945
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
4.2 years ago Laurent Gatto 1.6k
0
votes
4
replies
1.0k
views
GOexpress - Error when plotting expression data
RNA-seq transcriptomics gene ontology gene expression GOexpress
updated 4.2 years ago by ▴ 350 • written 4.2 years ago by • 0
0
votes
0
replies
852
views
Job: Bioinformatics Scientist, CNS Transcriptomics at Alnylam Pharmaceuticals, Cambridge MA, USA
scRNA-seq CNS transcriptomics RNAi Job
4.3 years ago Joseph Barry ▴ 10
0
votes
0
replies
756
views
Job: Bionformatician in personalized oncotherapy (BEL)
job bioinformatician immunotherapy genomics transcriptomics Job
4.4 years ago cedric • 0
1
vote
0
replies
850
views
Job: Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics gene expression time series plant biology circadian Job
4.5 years ago dezer ▴ 10
2
votes
2
replies
2.8k
views
How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 4.6 years ago by 50k • written 4.6 years ago by ▴ 10
2
votes
0
replies
2.3k
views
Job: Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics genomics transcriptomics software Job
4.6 years ago Laurent Gatto 1.6k
1
vote
1
reply
908
views
cpm filtering parameter
cpm filtering transcriptomics rnaseq edgeR metatranscriptomics
updated 4.6 years ago by 50k • written 4.6 years ago by ▴ 10
0
votes
0
replies
916
views
Job: Bionformatician Position / Heidelberg
neuroscience data integration transcriptomics Job
5.1 years ago • updated 5.0 years ago slezak • 0
0
votes
0
replies
767
views
How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
5.1 years ago Wuschel ▴ 10
1
vote
0
replies
1.6k
views
Job: Full time and permanent research logistician in Bioinformatics
transcriptomics proteomics job bioinformatician Job
5.1 years ago Laurent Gatto 1.6k
1
vote
1
reply
1.4k
views
News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
written 5.1 years ago by 1.6k
3
votes
4
replies
1.3k
views
Writing a loop to clean up protein names
Proteomics Transcriptomics Loops batch-processing R
updated 5.5 years ago by ▴ 80 • written 5.5 years ago by • 0
44 results • Page 1 of 1
Recent ...
Replies
Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k
"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…
Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k
These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…
Comment: DEG with low counts by Michael Love 41k
These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…
Comment: DESeq filtering specific to contrasts by Michael Love 41k
If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…
Comment: Estimating Cell Counts for EPIC V2 array data by normawiedman059 • 0
0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…
Votes
A: Docker container with bioconductor and devtools
Answer: OrgDb for maize
Comment: significant difference of p-values with dream() after updating VariancePartition
How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output
Comment: DEXSeq DEXSeqDataSet count matrix duplication
Awards • All
Popular Question to BioinfGuru ▴ 20
Popular Question to Gordon Smyth 50k
Scholar to Peter Hickey ▴ 740
Popular Question to sropri • 0
Popular Question to W. Evan Johnson ▴ 850
Locations • All
Egypt, just now
France, 1 minute ago
European Union, 3 minutes ago
Wageningen University, Wageningen, the Netherlands, 6 minutes ago
United States, 11 minutes ago
Traffic: 846 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