Showing : transcriptomics • reset
2
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4
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Altered (negative or positive) logFC values for same gene from two intitial count matrices, one being a subset of the other
Transcriptomics edgeR DEG
5 months ago Maziya • 0
0
votes
3
replies
875
views
DESeq2 analysis with transcript counts
Transcriptomics RNASeq DESeq2
written 9 months ago by • 0
0
votes
0
replies
287
views
Filtering Steps for proActiv Analysis
Transcriptomics proActiv
12 months ago LuciaNhu • 0
1
vote
6
replies
1.7k
views
New to Deseq2 - DEG questions / MA plot
genomes DESeq2 Transcriptomics
updated 12 months ago by ★ 5.0k • written 13 months ago by • 0
0
votes
0
replies
444
views
proActiv-promoter analysis
proActiv Transcriptomics
14 months ago wang.xiangyu • 0
0
votes
0
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786
views
Job: Postdoctoral fellowships in Spatial Omics and Single Cell Genomics at the University of Padova (IT)
SingleCell Transcriptomics SpatialDatasets SpatialData
17 months ago Silvio • 0
3
votes
2
replies
743
views
How to extract counts from a DESeq dataset ordered by a specific sample?
DESeq2 Transcriptomics
19 months ago Anita ▴ 10
4
votes
5
replies
3.8k
views
DESeq2, time-course interpretation
Transcriptomics TimeCourse DESeq2
updated 2.3 years ago by 43k • written 2.3 years ago by • 0
0
votes
4
replies
1.4k
views
problem while retriving the genes by using p value and log2fc as conditions
Bioconductor Transcriptomics DifferentialExpression DESeq2
2.4 years ago sreeshmaraj72 • 0
0
votes
1
reply
714
views
Time change in expression vs time change in phenotype
Transcriptomics ExpressionData DESeq2
updated 2.5 years ago by 43k • written 2.5 years ago by • 0
4
votes
5
replies
3.6k
views
EnhancedVolcano - Unable to customize the length of Connectors to Gene Labels
Transcriptomics EnhancedVolcano
updated 2.6 years ago by ★ 4.0k • written 2.6 years ago by ▴ 20
4
votes
8
replies
2.7k
views
DESEQ2 - What is the recommended workflow in terms of pre-filtering and counts normalization?
DESeq2 Transcriptomics
updated 2.6 years ago by ★ 13k • written 2.6 years ago by ▴ 20
0
votes
3
replies
1.4k
views
Understanding edgeR differential expression results
Transcriptomics edgeR DifferentialExpression RNASeqData RNASeq
updated 2.7 years ago by 53k • written 2.7 years ago by • 0
0
votes
1
reply
1.2k
views
Is it possible to convert transcript-level to gene-level dataset to use it in DESeq2 ?
DESeq2 Transcriptomics tximport deseq txi
updated 2.8 years ago by ★ 1.6k • written 2.8 years ago by ▴ 10
0
votes
1
reply
2.9k
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Variance stabilization transformation (VST), blind=TRUE
DESeq2 Transcriptomics RNASeq
updated 2.8 years ago by 43k • written 2.8 years ago by • 0
0
votes
0
replies
978
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Analysis of TIF-seq data to generate transcription start sites (TSS) and poly(A) site (PAS) clusters
Transcriptomics SequencingData
2.9 years ago Rom • 0
0
votes
0
replies
1.1k
views
Job: EPA Postdoctoral Fellowship in Bioinformatics and Computational Toxicology
MethylSeq Transcriptomics Pathways Epigenetics RNASeq
3.0 years ago whduke • 0
0
votes
2
replies
1.1k
views
Questions about `collapseReplicates` function in DESeq2
DESeq2 Transcriptomics
3.0 years ago Yijing • 0
0
votes
0
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1.1k
views
WCGNA: Using Eigengenes when correlating modules to external features? What about PC2, PC3???
Network Transcriptomics MicrobiomeData RNASEQ WCGNA
3.1 years ago Julieta • 0
3
votes
1
reply
3.9k
views
Understanding tximport working with salmon outputs
Transcriptomics tximport
updated 3.1 years ago by ★ 5.0k • written 3.1 years ago by ▴ 10
0
votes
3
replies
1.7k
views
DESeq2 - transcript length correction necessary when quantifying reads from ends of transcripts?
Transcriptomics DESeq2
3.3 years ago marius.wenzel • 0
4
votes
6
replies
2.3k
views
How to best visualize multi-level transcriptomics experiment data?
ggplot2 Transcriptomics Visualization R limma
3.5 years ago • updated 3.4 years ago mohammedtoufiq91 ▴ 10
1
vote
3
replies
1.8k
views
Identifying DEG between development stages
plant Transcriptomics DESeq2 r
updated 3.6 years ago by ▴ 780 • written 3.6 years ago by • 0
2
votes
5
replies
1.9k
views
DESeq2 with baseline correction for gene expression differences
DESeq2 edgeR Transcriptomics
updated 3.7 years ago by 43k • written 3.7 years ago by • 0
2
votes
2
replies
1.3k
views
Deseq2 Resul variation by LFC variation
rnaseqGene DESeq2 Transcriptomics
4.1 years ago • updated 2.5 years ago diangomaiga • 0
1
vote
2
replies
1.9k
views
Not many DE genes using glmTreat
EdgeR Bioinformatics Transcriptomics Quantseq
4.2 years ago Barista • 0
0
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0
replies
1.4k
views
Job: Senior Bioinformatician - University of Alabama at Birmingham
JobPosting Transcriptomics SingleCell RNA-seq
4.3 years ago lianov • 0
0
votes
0
replies
1.3k
views
Job: [apply by 8/15] PhD scholarship on functional and evolutionary genomics
JobPosting Transcriptomics GenomicVariation
4.3 years ago marie • 0
0
votes
2
replies
1.8k
views
Downloading org.Mm.eg.db after R reinstall
org.Mmu.eg.db Transcriptomics
4.6 years ago Kate • 0
0
votes
0
replies
1.3k
views
Consensus wgcna soft threshold for each data
Transcriptomics WGCNA wgcna
4.6 years ago 2323982403 ▴ 60
0
votes
1
reply
1.2k
views
Metatranscriptomics DESeq2 multifactorial sampling
Transcriptomics DESeq2
updated 4.6 years ago by 43k • written 4.6 years ago by • 0
0
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0
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1.3k
views
Job: Bioinformatician at MiroBio, Oxford, UK
Transcriptomics Bioconductor Statistics Job Biocon
4.7 years ago m.jackson • 0
5
votes
5
replies
4.6k
views
analyzing RNA-Seq transcriptomic data (GEO accession: GSE96058)
GEO RNASeqR Transcriptomics
updated 4.7 years ago by 68k • written 4.7 years ago by ▴ 10
0
votes
0
replies
1.5k
views
Job: Computational Biologist at Denali Therapeutics
Transcriptomics SingleCell JobPosting
4.8 years ago Steve Lianoglou ★ 13k
1
vote
1
reply
1.3k
views
NanoStringDiff Not Recognized as Numeric
Bioconductor Transcriptomics NanoStringDiff
updated 5.0 years ago by 1.6k • written 5.0 years ago by ▴ 10
0
votes
0
replies
1.1k
views
Problems with cummeRbund
plot transcriptomics differential expression cummeRbund
5.6 years ago raquelponti • 0
1
vote
0
replies
1.4k
views
News: News: Bioinformatics Summer School - July 2020 - UCLouvain (Belgium)
rnaseq course proteomics transcriptomics scrnaseq News
5.7 years ago Laurent Gatto 1.6k
0
votes
4
replies
1.6k
views
GOexpress - Error when plotting expression data
RNA-seq transcriptomics gene ontology gene expression GOexpress
updated 5.8 years ago by ▴ 350 • written 5.8 years ago by • 0
0
votes
0
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1.3k
views
Job: Bioinformatics Scientist, CNS Transcriptomics at Alnylam Pharmaceuticals, Cambridge MA, USA
scRNA-seq CNS transcriptomics RNAi Job
5.8 years ago Joseph Barry ▴ 10
0
votes
0
replies
1.1k
views
Job: Bionformatician in personalized oncotherapy (BEL)
job bioinformatician immunotherapy genomics transcriptomics Job
5.9 years ago cedric • 0
1
vote
0
replies
1.2k
views
Job: Bioinformatics PhD: The circadian clock in the ageing plant, University of York, UK
transcriptomics gene expression time series plant biology circadian Job
6.1 years ago dezer ▴ 10
2
votes
2
replies
4.5k
views
How adjusted p-values are calculated in limma
limma r transcriptomics FDR statistics
updated 6.1 years ago by 53k • written 6.1 years ago by ▴ 10
2
votes
0
replies
2.8k
views
Job: Bioconductor infrastructure for the integration of genomics, transcriptomics and proteomics data
proteomics genomics transcriptomics software Job
6.1 years ago Laurent Gatto 1.6k
1
vote
1
reply
1.4k
views
cpm filtering parameter
cpm filtering transcriptomics rnaseq edgeR metatranscriptomics
updated 6.1 years ago by 53k • written 6.1 years ago by ▴ 10
0
votes
0
replies
1.3k
views
Job: Bionformatician Position / Heidelberg
neuroscience data integration transcriptomics Job
6.6 years ago • updated 6.5 years ago slezak • 0
0
votes
0
replies
1.2k
views
How to integrate and visualize RNASeq / Proteomics data for metabolomics pathways?
r metabolomics KEGG Proteomics Transcriptomics
6.6 years ago Wuschel ▴ 10
1
vote
0
replies
2.0k
views
Job: Full time and permanent research logistician in Bioinformatics
transcriptomics proteomics job bioinformatician Job
6.7 years ago • updated 6.6 years ago Laurent Gatto 1.6k
1
vote
1
reply
1.8k
views
News: Bioinformatics Summer School - July 2019 - UCLouvain (Belgium)
RNAseq deseq2 proteomics transcriptomics workshop News
written 6.7 years ago by 1.6k
3
votes
4
replies
1.9k
views
Writing a loop to clean up protein names
Proteomics Transcriptomics Loops batch-processing R
updated 7.1 years ago by ▴ 80 • written 7.1 years ago by • 0
49 results • Page 1 of 1
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Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
I can reproduce this and have opened an issue on the code base https://github.com/Bioconductor/support.bioconductor.org/issues/112
Comment: "Watched Tags" are being erased rather than updated by shepherl 4.2k
we can investigate this issue. thank you for bringing it to our attention
Comment: deseq2 filter the low counts by Michael Love 43k
> But within each comparison (contrast), if I trace some DEGs back to the original salmon merged gene counts (or even to normalised counts)…
Comment: deseq2 filter the low counts by empty_mt • 0
Thank you for you suggestion to look at the pre-filtering section in the DESeq2 vignettes - am I missing something? I have 6 treatments, …
Comment: deseq2 filter the low counts by Michael Love 43k
Have you seen this part: https://bioconductor.org/packages/release/bioc/vignettes/DESeq2/inst/doc/DESeq2.html#pre-filtering
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Bioconductor 3.22 Released!
Bioconductor 3.22 Released!
Comment: "Watched Tags" are being erased rather than updated
Comment: deseq2 filter the low counts
Answer: DESeq2 interactions
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