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News:
Announcing the GBCC2025 Logo Design Contest!
Conference
Community
Galaxy
GBCC2025
Bioconductor
3 months ago
Maria Doyle
▴ 100
0
votes
2
replies
1.2k
views
DESeq2 analysis on Galaxy. PCA plot shows my replicates do not cluster and large intragroup variability
DESeq2
Galaxy
pca
updated 23 months ago by
swbarnes2
★ 1.4k • written 23 months ago by
mbxdn1
• 0
0
votes
1
reply
1.1k
views
Controlling for sex variance in Galaxy DESeq2
DESeq2
RNASeq
Galaxy
updated 3.0 years ago by
Michael Love
43k • written 3.0 years ago by
István
• 0
0
votes
3
replies
1.9k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 2.6 years ago by
Kevin Blighe
★ 4.0k • written 4.5 years ago by
lakshmi9c
• 0
0
votes
1
reply
650
views
deseq2 for enrichments between different subcellular fractions?
deseq2
galaxy
updated 4.8 years ago by
Michael Love
43k • written 4.8 years ago by
mikelirastor
• 0
1
vote
3
replies
1.6k
views
Running DESeq2 inside local Galaxy instance
deseq2
galaxy
7.8 years ago
gkuffel
▴ 10
0
votes
2
replies
1.6k
views
Data analysis in R
bioconductor
next-generation sequencing
galaxy
updated 8.1 years ago by
Lucas Schiffer
▴ 240 • written 8.1 years ago by
efraim.culfa
• 0
0
votes
4
replies
4.5k
views
Using DESeq2 inside Galaxy
rnaseq
galaxy
deseq2
updated 8.9 years ago by
Michael Love
43k • written 8.9 years ago by
Marcelo Pereira
▴ 70
0
votes
2
replies
1.4k
views
Inverting order of groups when using DESeq2
DESeq2
Galaxy
updated 8.9 years ago by
Michael Love
43k • written 8.9 years ago by
Marcelo Pereira
▴ 70
9 results • Page
1 of 1
Recent ...
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Comment: WGCNA coupled with differential expression analysis: question about baseline mod
by
hetaf16210
• 0
@[slope][1] If feasible, consider conducting both analyses. Start with a pooled analysis to identify broad patterns, then conduct separate …
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
980linnet
• 0
Stuck on DESeq2 with alpha=.05 for padj cutoff. Can't seem to get the differential expression analysis to stick the landing - it's like try…
Comment: internal error in trio library when trying to use lfmm() in LEA package
by
PW
• 0
>ERROR: unable to open file D://anole_geno.snmf/K1/run1/anole_geno_r1.1.Q. Please, check that the name of the file you provided is correct.…
Comment: DESeq2 adujsted p-value cutoff seemingly not working
by
Guilherme
• 0
Thank you for your answer So the proper way to conduct the analysis is to put the filters in the results() function and later filter the da…
Comment: DiffBind - observation that the default union overlap is actually a gap of 1 bp
by
Ian D.
▴ 70
Please can you comment on this @rory.
Votes
A: how to extract Granges not overlapping with other ganges?
DESeq2 1.20.0 lfcshrink function
A: LIMMA on RT-PCR data
Answer: Efficiently working with HDF5-backed SingleCellExperiments
Efficiently working with HDF5-backed SingleCellExperiments
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ramiro.barrantes
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Vincent J. Carey, Jr.
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