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News:
Announcing the GBCC2025 Logo Design Contest!
Conference
Community
Galaxy
GBCC2025
Bioconductor
16 months ago
Maria Doyle
▴ 110
0
votes
2
replies
1.6k
views
DESeq2 analysis on Galaxy. PCA plot shows my replicates do not cluster and large intragroup variability
DESeq2
Galaxy
pca
updated 3.0 years ago by
swbarnes2
★ 1.4k • written 3.0 years ago by
mbxdn1
• 0
0
votes
1
reply
1.5k
views
Controlling for sex variance in Galaxy DESeq2
DESeq2
RNASeq
Galaxy
updated 4.0 years ago by
Michael Love
43k • written 4.0 years ago by
István
• 0
0
votes
3
replies
2.5k
views
StringTie output as Ballgown input
ballgown
StringTie
galaxy
rnaseq
updated 3.7 years ago by
Kevin Blighe
★ 4.0k • written 5.6 years ago by
lakshmi9c
• 0
0
votes
1
reply
869
views
deseq2 for enrichments between different subcellular fractions?
deseq2
galaxy
updated 5.9 years ago by
Michael Love
43k • written 5.9 years ago by
mikelirastor
• 0
1
vote
3
replies
1.9k
views
Running DESeq2 inside local Galaxy instance
deseq2
galaxy
8.9 years ago
gkuffel
▴ 10
0
votes
2
replies
1.9k
views
Data analysis in R
bioconductor
next-generation sequencing
galaxy
updated 9.2 years ago by
Lucas Schiffer
▴ 240 • written 9.2 years ago by
efraim.culfa
• 0
0
votes
4
replies
5.2k
views
Using DESeq2 inside Galaxy
rnaseq
galaxy
deseq2
updated 10.0 years ago by
Michael Love
43k • written 10.0 years ago by
Marcelo Pereira
▴ 70
0
votes
2
replies
1.6k
views
Inverting order of groups when using DESeq2
DESeq2
Galaxy
updated 10.0 years ago by
Michael Love
43k • written 10.0 years ago by
Marcelo Pereira
▴ 70
9 results • Page
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Answer: tximeta cannot open annotation gtf?
by
ATpoint
★ 5.0k
> Timeout of 60 seconds was reached You have to increase the default timeout limits for downloads, `options(timeout=3600)`. GENCODE serve…
Answer: GSEA error
by
James W. MacDonald
68k
At a very high level, the way non-model organisms are annotated is by using blast to find orthologs in other species that are well annotate…
Comment: Unable to find ENTREZ IDs
by
Adithi
• 0
Hi James, Thank you so much for your reply. My main goal is to find ortholog genes from chinese hamster gene symbols to mouse gene symbols…
Comment: Unable to find ENTREZ IDs
by
Adithi
• 0
Hi James, Thank you so much for your reply. My main goal is to find ortholog genes from chinese hamster gene symbols to mouse gene symbols…
Answer: Unable to find ENTREZ IDs
by
James W. MacDonald
68k
Those are the 'symbols', and are a concatenation of LOC and the NCBI Gene ID (what used to be called an Entrez Gene ID). As an example:http…
Votes
Answer: GSEA error
Answer: OrgDb for maize
Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
Answer: Highly similar RNA-seq samples in PCA - pooling or technical duplication?
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