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DESeq2 analysis on Galaxy. PCA plot shows my replicates do not cluster and large intragroup variability
DESeq2
Galaxy
pca
updated 19 months ago by
swbarnes2
★ 1.4k • written 19 months ago by
mbxdn1
• 0
0
votes
1
reply
1.0k
views
Controlling for sex variance in Galaxy DESeq2
DESeq2
RNASeq
Galaxy
updated 2.6 years ago by
Michael Love
42k • written 2.6 years ago by
István
• 0
0
votes
3
replies
1.7k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 2.3 years ago by
Kevin Blighe
★ 4.0k • written 4.2 years ago by
lakshmi9c
• 0
0
votes
1
reply
570
views
deseq2 for enrichments between different subcellular fractions?
deseq2
galaxy
updated 4.5 years ago by
Michael Love
42k • written 4.5 years ago by
mikelirastor
• 0
1
vote
3
replies
1.5k
views
Running DESeq2 inside local Galaxy instance
deseq2
galaxy
7.5 years ago
gkuffel
▴ 10
0
votes
2
replies
1.5k
views
Data analysis in R
bioconductor
next-generation sequencing
galaxy
updated 7.8 years ago by
Lucas Schiffer
▴ 240 • written 7.8 years ago by
efraim.culfa
• 0
0
votes
4
replies
4.3k
views
Using DESeq2 inside Galaxy
rnaseq
galaxy
deseq2
updated 8.5 years ago by
Michael Love
42k • written 8.6 years ago by
Marcelo Pereira
▴ 70
0
votes
2
replies
1.3k
views
Inverting order of groups when using DESeq2
DESeq2
Galaxy
updated 8.5 years ago by
Michael Love
42k • written 8.5 years ago by
Marcelo Pereira
▴ 70
8 results • Page
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Comment: miRTarRnaseq library
by
mercedeh.movassagh
▴ 20
Hi Maria, so what is the code you are using? By the 3rd way to conduct the analysis do you mean looking at the interaction model from part …
Comment: miRTarRnaseq library
by
María Calvo
• 0
Hello, in line with the previous questions, when the miRNA-mRNA interaction analysis is performed (3 rd way to conduct the analysis), I obt…
Answer: heatmap with batch effect
by
James W. MacDonald
67k
You have only one condition in the second batch, so it's not possible to remove the batch effect. You can probably adjust for it somewhat, …
Answer: how do I convert an Ilumn IDREF to a CPG loci
by
James W. MacDonald
67k
``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame with 865859 rows and 3 columns ch…
Answer: Which input data is acceptable for MAST?
by
Andrew_McDavid
▴ 270
Not too familiar with SCT v2. If it also has a point-mass at zero and the non-zero component is roughly-symmetric, then it might work ok w…
Votes
Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Answer: How to control batch effect if Group and batch are same?
Comment: Convert HGVS Representation back to Reference Genome Coordinates
Answer: How to control batch effect if Group and batch are same?
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