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GFF3
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reset
1
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2
replies
1.5k
views
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 4.7 years ago by
Michael Lawrence
★ 11k • written 4.7 years ago by
mictadlo
▴ 10
0
votes
0
replies
993
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
4.5k
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: How to compare subset of samples from VCF files
by
Gordon Smyth
50k
Welcome to Bioconductor support. Did you know that you can delete your old postings if they haven't received an answer yet? Instead of ap…
Comment: How to compare subset of samples from VCF files
by
Marco
• 0
Here's the vcf file as code block ``` ##fileformat=VCFv4.2 ##INFO=<ID=DP,Number=1,Type=Integer,Description="Approximate read depth"> ##FOR…
Comment: Gviz and custom database
by
James W. MacDonald
66k
The vignette for `Gviz` says you can use a `DNAStringSet`, generated using `Biostrings`. Have you tried that?
Comment: Gviz and custom database
by
luigi.faino
• 0
Dear, this is not what I need. I need to transform a fasta sequence in a genome track usable in Gviz. L
Answer: Gviz and custom database
by
James W. MacDonald
66k
https://bioconductor.org/packages/release/bioc/vignettes/txdbmaker/inst/doc/txdbmaker.html
Votes
Answer: makeExampleDESeqDataSet using pilot data
Answer: Checking/updating package versions
Answer: Why is longestConsecutive() depreceated in version 2.72 (BioC version 3.19)?
convert data frame of Entrez IDs to Gene Symbols
Answer: LRT, pairwise comparisons and p-value adjustment
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Fred Hutch (Recruiting)
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James W. MacDonald
66k
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Levi Waldron
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