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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
3
replies
1.4k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 23 months ago by
Kevin Blighe
★ 3.9k • written 3.8 years ago by
lakshmi9c
• 0
0
votes
1
reply
857
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
1
reply
490
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 8.2 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 8.2 years ago by
Michael Love
42k • written 8.2 years ago by
Marcelo Pereira
▴ 70
8 results • Page
1 of 1
Recent ...
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Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
JKim
• 0
The 1st model has an interaction term, but the 2nd model doesn't have the interaction term. That makes the difference.
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Comment: Numerical differences in DESeq2 output depending on different design matrix cons
by
swbarnes2
★ 1.4k
If you restrict yourself to, say, genes with a baseMean > 50, are the numerical differences between the two designs significant?
Comment: DESeq2- Mysterious interaction suppresses DEGs
by
shaunpeterson
• 0
The images I tried to attach didn't attach. Here is the PCA (MDS) of all the samples, with the Cortex outlier highlighed. ![enter image de…
Comment: STRINGdb : error with string_db$plot_network()
by
damian.szk
▴ 80
ok. Forcing non-secure protocol should not be needed anymore, due to changes in the underlying library. However, I will look at why "HTTP" …
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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