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gagedata
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How to use GAGE with my own metagenomic KOFams data
kegg.gsets
gageData
gage
KEGG
5 months ago
cereyredondo
• 0
0
votes
0
replies
988
views
Pathway Analysis using GAGE
gage
RNASeq
gageData
Pathways
2.7 years ago
OST
• 0
6
votes
5
replies
1.8k
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KEGG analysis for plasmodium
KEGG
gage
gageData
pathview
updated 3.8 years ago by
Luo Weijun
★ 1.6k • written 3.8 years ago by
MOHAMMAD
• 0
0
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0
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789
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Setting threshold with gage for gene set analysis
gage
gageData
3.8 years ago
jd348
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1
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2
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1.4k
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Can I create a gene set using GAGE?
gage
pathview
gageData
written 3.9 years ago by
Emilia
▴ 40
5 results • Page
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Answer: Cross-validation with multiple control subgroups in limma
by
Gordon Smyth
52k
limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…
Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio
by
Robert Castelo
★ 3.4k
Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…
Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS
by
Aidan
▴ 60
Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…
Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings?
by
Michael Love
43k
For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
by
xiaofeiwang198266
• 0
Thanks for your reply!
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C: edgeR and lack of counts ID on CPM matrix
A: DESeq2 Following RSEM
A: importing RSEM data into DESeq2
A: Expected counts from RSEM in DESeq2
A: Using RSEM reads for DESeq2
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