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Galaxy
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DESeq2 analysis on Galaxy. PCA plot shows my replicates do not cluster and large intragroup variability
DESeq2
Galaxy
pca
updated 14 months ago by
swbarnes2
★ 1.4k • written 14 months ago by
mbxdn1
• 0
0
votes
1
reply
853
views
Controlling for sex variance in Galaxy DESeq2
DESeq2
RNASeq
Galaxy
updated 2.2 years ago by
Michael Love
42k • written 2.2 years ago by
István
• 0
0
votes
3
replies
1.4k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 22 months ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
lakshmi9c
• 0
0
votes
1
reply
489
views
deseq2 for enrichments between different subcellular fractions?
deseq2
galaxy
updated 4.1 years ago by
Michael Love
42k • written 4.1 years ago by
mikelirastor
• 0
1
vote
3
replies
1.4k
views
Running DESeq2 inside local Galaxy instance
deseq2
galaxy
7.1 years ago
gkuffel
▴ 10
0
votes
2
replies
1.3k
views
Data analysis in R
bioconductor
next-generation sequencing
galaxy
updated 7.4 years ago by
Lucas Schiffer
▴ 240 • written 7.4 years ago by
efraim.culfa
• 0
0
votes
4
replies
4.0k
views
Using DESeq2 inside Galaxy
rnaseq
galaxy
deseq2
updated 8.1 years ago by
Michael Love
42k • written 8.2 years ago by
Marcelo Pereira
▴ 70
0
votes
2
replies
1.2k
views
Inverting order of groups when using DESeq2
DESeq2
Galaxy
updated 8.1 years ago by
Michael Love
42k • written 8.1 years ago by
Marcelo Pereira
▴ 70
8 results • Page
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Comment: Extremely small p-values using Limma for proteomic data
by
James W. MacDonald
65k
If you ever find yourself using the `@` function, you should reconsider what you are doing. There are vanishingly small instances when an e…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
42k
Here is some example code <https://gist.github.com/mikelove/cbbc84634b6854c865cb5eb08ad9b245>
Comment: How to use spike-in information (sequences from another species) with DESeq2::DE
by
maria.soler
• 0
Hi, I have a question barely related to this topic. Do you use a custom reference genome combining your organism and the one used as a spik…
Answer: Differential gene expression analysis results
by
ATpoint
★ 4.1k
Pease do not open multiple posts for the same issue: https://support.bioconductor.org/p/9158194/#9158222 The support site is not meant f…
Comment: deseq2 results
by
sajadahmad41454
• 0
thank you for your response, should i remove or discard that sample? since the red outlier on left represents one of healthy samples.
Votes
A: AIC-like measure for DESeq2
Comment: Extremely small p-values using Limma for proteomic data
Comment: Log-cpm values from limma
Comment: Log-cpm values from limma
Comment: deseq2 results
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