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gage package
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GAGE for non model organism
gage package
gage
5.8 years ago
melkile26
• 0
1
vote
2
replies
1.2k
views
GAGE analysis with the whole or a subset of matrix
gage
gage package
gene expression matrix
gene set analysis
5.8 years ago
atakanekiz
▴ 30
5
votes
7
replies
2.8k
views
Gage package; go.gset() function error: argument "go_id" is missing
gage package
error
updated 6.0 years ago by
James W. MacDonald
65k • written 6.0 years ago by
Miskey, Csaba
▴ 20
0
votes
2
replies
3.7k
views
Cannot open URL 'http://rest.kegg.jp/get/osaNA/kgml': HTTP status was '400 Bad Request'
gage
gage package
pathview
rna-seq
updated 2.2 years ago by
Helen
• 0 • written 6.2 years ago by
tarun2
• 0
2
votes
4
replies
1.7k
views
Can't find gene list for KEGG genesets
kegg
geneset
genelist
gage package
updated 6.8 years ago by
Gordon Smyth
50k • written 6.8 years ago by
sup230
▴ 30
1
vote
0
replies
1.5k
views
DESeq2 - GAGE workflow
gage package
deseq2
6.8 years ago
sup230
▴ 30
0
votes
2
replies
1.6k
views
How to extract essential genes from pathway (essGene) using DEseq2/GAGE workflow?
gage
gage package
updated 7.5 years ago by
Luo Weijun
★ 1.6k • written 7.6 years ago by
Michael
• 0
1
vote
2
replies
1.4k
views
Need to convert gene IDs for GAGE pathway analysis of honey bee RNA-seq data
R
gage package
rnaseq
pathview
7.8 years ago
joanito.liberti
• 0
0
votes
1
reply
942
views
Question on Gage
gage package
path.ids
RNA-Seq
7.8 years ago
rl1385
• 0
0
votes
0
replies
918
views
GAGE package statistical tests
t-test
GAGE package
Kolmogorov-Smirnov test
Gene-Set enrichment
7.9 years ago
smt8n
• 0
10 results • Page
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Answer: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
Your code is poorly readable. Suggest you select and then highlight with markdown using the `10101` button. Generally, colData(dds) must…
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons
by
Michael Love
42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs
by
Michael Love
42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
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!
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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