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Ι run python /rmats-turbo/rmats2sashimiplot/src/rmats2sashimiplot/rmats2sashimiplot.py --b1 SRR14821218.align.sort.bam --b2 SRR14821219.align.sort.bam -c 7:-:140719327:140924928:./Homo_sapiens.GRCh38…
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from Ticket/Display.html?id=130284
I think we
will only need a table with the gene ID and the half life?
(for session 3233320f8849c7ea) check progress for annotation of
genes whose expression is…
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Hi @agshumate
I appreciate you and your team's effort for developing the tool Liftoff.
Having used liftoff versions (v1.1.3, 1.3.0 and 1.4.2), I could see in the `output.gff` file generated by …
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How exactly does COMPSRA determine if a read maps to a circRNA? Does it specifically consider only reads that map to the splice junction? Otherwise, reads from linear mRNAs that map to an exonic seque…
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Hello!
Recently I've had to sequence and analyse a RNA-Seq set from T. cruzi RNA. For that, I used Salmon in the alignment-independent mode (aligning to a reference transcriptome).
Typical issues as…
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I run the tutorial with its data. In module 2 `CD53`, and `CAPS1` are regulators. They are also in the mRNAs.
How is this possible? Regulators are parents of mRNAs. In this case, we got a cyclic gr…
haluk updated
3 years ago
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A feature that I'd find very useful is parsing of gffutils GFF records into a (lightweight) Gene-like object. Something like:
```
# recs is a set of GFF records
gene_obj = make_gene_obj(recs)
# Acces…
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Hello,
I noticed the UD used in Mark's example does not have all CDSs correctly mapped to its mRNAs:
https://www.mutalyzer.nl/name-checker?description=UD_132118785483%28NPHP4_v001%29%3Ac.3156del
My c.…
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Hi,
I found that there is no gene feature in gmove results, and how can we know which mRNAs belongs to the same gene ?
Best,
Kun
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Jan 30 09:37:01 ..... started STAR run
Jan 30 09:37:01 ... starting to generate Genome files
Jan 30 09:37:38 ... starting to sort Suffix Array. This may take a long time...
Jan 30 09:37:49 ... sort…