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GFF3
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reset
1
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2
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1.5k
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DEXSeq Python script dexseq_prepare_annotation.py unable to process my .gtf file
dexseq
python
gtf
gff3
annotation
4.1 years ago
Raito92
▴ 60
2
votes
2
replies
2.0k
views
Filtering GFF3 file
annotation
gff3
gff
genome
updated 4.8 years ago by
Michael Lawrence
★ 11k • written 4.8 years ago by
mictadlo
▴ 10
0
votes
0
replies
997
views
I need to measure distance of PAR-CLIP data to RNA regions
parclip
bedtools
bed files
gff3
6.4 years ago
linuxborg2
• 0
2
votes
2
replies
4.6k
views
How to prepare TxDb object using makeTxDbFromGFF with polycistronic transcripts?
txdb
gff3
polycistronic transcript
6.6 years ago
Piotr Gawronski
• 0
9
votes
3
replies
3.1k
views
Importing Gene Symbols with makeTxDbFromGFF
GenomicFeatures
GFF3
updated 7.2 years ago by
Valerie Obenchain
★ 6.8k • written 7.2 years ago by
Dario Strbenac
★ 1.5k
2
votes
0
replies
3.4k
views
News:
Gencode GFF3 and FASTA files now available via AnnotationHub
AnnotationHub
Gencode
GFF3
FASTA
News
8.8 years ago
Sonali Arora
▴ 390
6 results • Page
1 of 1
Recent ...
Replies
Comment: gds in GEOmetadb 2023-06-26 version is empty
by
Frederico Moraes Ferreira
▴ 100
Try axel -n 20 https://gbnci.cancer.gov/geo/GEOmetadb.sqlite.gz
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
James W. MacDonald
66k
The default for `enrichGO` is to subset to those with a p-value<0.05. You don't adjust that default argument, so you shouldn't have any GO …
Answer: In a 3 group DEG analysis with three batches, can I use 1 group in all three bat
by
Michael Love
42k
You can compare A and C thanks to the sharing of samples from B across 1, 2 and 3.
Comment: Most enriched pathway is not expressed when modifying universe parameter
by
adripel
• 0
In the enrichGO results we have significant and non-significant enriched terms that are displayed. So why would an enriched term (significa…
Answer: Design formula, numeric contrast, and lfcshrink in deseq2
by
Michael Love
42k
For questions about how to construct the correct contrasts correspond to particular hypotheses, I recommend consulting with a local statist…
Votes
Comment: Most enriched pathway is not expressed when modifying universe parameter
Time-course, comparison of two groups
Answer: Behaviour of featureCounts when quantifying multi-mapping reads
Answer: GESA with certain gene list returns no result with human genom, but many result
Answer: Odd behavior of Rsubread::featureCounts when setting `nonOverlap = 0`
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swbarnes2
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Stephanie M. Gogarten
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