-
To replace GO:1990521 | m7G(5')pppN diphosphatase activator activity, see #23290
PMID:22323607
-
We recently came across the issue where the spikein GTF as specified using createIndices is not considered when using featureCounts in the mRNA-seq pipeline.
-
[Franzi]
-
IPR is done with proteins. Coordinates get read in for protein, and then displayed on the mRNA.
As a result, our coordinate locations are always wrong: they span the first 1/3 of the mRNA!
![…
-
@pgaudet I think this is what you had in mind.
1. GO:0140818 mRNA 5'-phosphatase activity
2. GO:0004484 mRNA guanylyltransferase activity
3. GO:0004482 mRNA 5'-cap (guanine-N7-)-methyltransfer…
-
I ran the Fix_start_stop on my genome but it does not resolve all
Total sequence length 496122366
Number of genes 19350
Number of mRNAs …
-
For the Spot detection there is a mix up of the inputs for voxel_size and object_radius.
The code should have psf values in nanometers define the voxel_size_nm and the object_radius_nm is the appro…
-
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…
-
I think there a lot of confusion about what we have and what were trying to do. I am sure I am not alone in this.
We 100% have RNA data. GUAC, not ATGC. T not U.
This is very easy to verify. Op…
-
We have lots of annotations associated with various modified forms. E.g.
In this model,
http://noctua.geneontology.org/workbench/noctua-visual-pathway-editor/?model_id=gomodel%3A66187e47…