-
There are a number of unsats in OMIT (2494), mostly I think due to the fact that miRNA is classified both as small_regulatory_ncRNA (which is is generically dependent continuant), and 'non-coding RNA'…
-
Hi,
I am following the getting started tutorial (http://pachterlab.github.io/kallisto/10xstarting.html) for single cell RNAseq but when I get to the point:
Download the “human-mouse” transcripto…
-
Please remove 'sncRNA' (SO:0002247) and 'sncRNA_gene' (SO:0002342) grouping classes.
These 'small non-coding RNA' terms are defined simply based on length ("a ncRNA less than 200 nucleotides") - es…
-
Many lines are missing and some canonical genes now are classified as "RNA".
- AGAT version (v1.4.0)
- AGAT installation/use [Conda]
- OS: [Ubuntu]
I wanted to fix the gtf file that I received…
-
This is a record of previous discussions with Wikidata community members regarding
- using "instance of" to indicate the semantic type
- classes being instance of one of their superclasses
https…
-
- The issue is related to the user-provided proteins feature and its associated issues.
- I am trying to use bakta to perform annotation on a phage predicted protein file that used Phanotate. I wa…
-
I am looking at the functions of the genes that are closest to the ncRNAs for Apul, Peve, and Ptuh.
Here's the R code for the 3 species that I have been using to examine the functions of the genes…
-
Pseudogenes
rRNA
tRNA
miRNA
ncRNA
see tbl format spec here: http://www.ncbi.nlm.nih.gov/genbank/genomesubmit_annotation
see GFF3 format spec here: http://www.sequenceontology.org/resources/gff3.html
…
-
Thankyou for building the new tool to complement Orthofinder.
The features are currently required in NCBI feature format. Is it possible to implement a feature to use a local GFF file instead as an i…
-
in the tutorial it is described as :
Type: The type of sequence to search for. Can be one of CDS, tRNA, rRNA, misc_RNA, D-Loop, or misc_feature.
but there are other kinds of annotations availabl…