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GFF3
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1.9k
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DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq
python
gtf
gff3
annotation
4.8 years ago
Raito92
▴ 60
2
votes
2
replies
2.3k
views
Filtering GFF3 file
annotation
gff3
gff
genome
updated 5.5 years ago by
Michael Lawrence
★ 11k • written 5.5 years ago by
mictadlo
▴ 10
0
votes
0
replies
1.2k
views
I need to measure distance of PAR-CLIP data to RNA regions
parclip
bedtools
bed files
gff3
7.1 years ago
linuxborg2
• 0
2
votes
2
replies
5.1k
views
How to prepare TxDb object using makeTxDbFromGFF with polycistronic transcripts?
txdb
gff3
polycistronic transcript
7.3 years ago
Piotr Gawronski
• 0
9
votes
3
replies
3.6k
views
Importing Gene Symbols with makeTxDbFromGFF
GenomicFeatures
GFF3
updated 7.9 years ago by
Valerie Obenchain
★ 6.8k • written 7.9 years ago by
Dario Strbenac
★ 1.6k
2
votes
0
replies
3.8k
views
News:
Gencode GFF3 and FASTA files now available via AnnotationHub
AnnotationHub
Gencode
GFF3
FASTA
News
9.5 years ago
Sonali Arora
▴ 390
6 results • Page
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Answer: SingleR with multiple single cell references
by
Aaron Lun
★ 28k
> Is it necessary to piece together the individual steps manually (e.g. aggregateReference, trainSingleR, classifySingleR, combineRecompute…
Answer: Automatically install dependencies
by
ATpoint
★ 4.7k
The BiocManager, which is sort of an extended wrapper around `install.packages`, installs all R dependencies. If you see errors then this i…
Answer: To count or not to count multi-overlapping reads?
by
Gordon Smyth
52k
> How does it handle reads that map to a gene that is located in a region that also has another gene but on the alternate strand? Overlapp…
Comment: Weird p-values using DESeq2?
by
ATpoint
★ 4.7k
This does not look like normalized counts but raw counts. Consider using `counts(dds, normalized = TRUE)` or the output of `normTransform()…
Votes
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Comment: Overcoming confounding in batch effect correction
Answer: Store Matrix in DataFrame Cell
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