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ORFik
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2
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getSeq failing with DNAStringSet and GRanges
ORFik
Bioconductor
GenomicRanges
Biostrings
BSgenome
2.3 years ago
Mog
• 0
1
vote
3
replies
2.1k
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Does there exists a getSeq like function for ranges that wrap around end to start ?
circulargenome
ORFik
getSeq
3.8 years ago
hauken_heyken
▴ 80
1
vote
2
replies
1.3k
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Error when using ORFik: findORFsFasta gives wrong start and stop codon
GRanges
ORFik
openreadingframe
circulargenome
findORFsFasta
updated 3.9 years ago by
hauken_heyken
▴ 80 • written 3.9 years ago by
levasseurmaxence
• 0
3 results • Page
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Comment: How to sort negative log2FC or FC in RNAseq for GSEA?
by
QN
▴ 10
Thank you ATpoint for your response! In the result of GSEA, like you indicated, there will be gene sets that have positive NES and gene se…
Comment: EdgeR Biological CVs
by
ATpoint
★ 4.6k
"Joseph" is a spam bot...
Answer: How to sort negative log2FC or FC in RNAseq for GSEA?
by
ATpoint
★ 4.6k
GSEA asks whether there are general shifts in gene expression towards certain terms. Hence, you would not split your results tables but ord…
Comment: EdgeR Biological CVs
by
James
• 0
Thank you Gordon and Joseph. I presume question (1) would be answered by using a prior G0 of 0? For question (2), I was expecting a biolog…
Answer: EdgeR Biological CVs
by
Gordon Smyth
52k
I think your questions are answered by the published paper. You might also like to consult recent papers on edgeR by Yunshun Chen and Pedro…
Votes
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
Answer: EdgeR Biological CVs
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Error in download.file for TCGAutils::symbolsToRanges
Answer: Differential expression of protein coding ENSGs (Ensembl IDs) | When to biomaRt?
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