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ORFik
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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
3.9 years ago • updated 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 visualize these pathways using pathview
by
Guido Hooiveld
★ 4.1k
FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
Quang NN
▴ 10
I see. Thank you ATpoint!
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K?
by
Prakash Sah
• 0
Thanks James!
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
ATpoint
★ 4.6k
I think I explained what the differences between approach 1 and 2 is in my answer. I assume that the tutorial uses vst because it is varian…
Comment: Why select top highly expressed genes based on normalized counts, but then plot
by
Quang NN
▴ 10
Thank you ATpoint for your responses. I am a bit confused because the difference between the two approaches is the selection of the genes…
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Bioconductor Course, Kenya 2025: Applications Open!
Comment: can't install tscR
Answer: Csaw normalization strategies - general inquiry
A: DESeq2 interaction term
Comment: Recount3 data correspond to TCGA data
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