Blake Sweeney
Blake Sweeney
As with #541 we should hide the poor r2dt diagrams from Rfam. This issue is separate because we can deploy either without each other and it will be useful.
Not all test cases are currently passing. We should fix this. Creating a random forest or the like to handle this would be good.
They have a new release, and we do not have it.
Database of RNA interactions: http://bigdata.ibp.ac.cn/npinter/
Currently the genome browser contains lots and lots of 'extra' entries for certain RNA types. A nice example is: https://rnacentral.org/rna/URS0000726FAB/9606. Here the browser is nearly useless because of all the...
It appears that the Rfam filters were not run properly. The import has overlaps that it should not.
Here are some small problems I've noted browsing that should be fixed. - [ ] See why species is of http://test.rnacentral.org/search?q=RNA%20AND%20rna_type:%22guide%20RNA%22%20AND%20TAXONOMY:%225686%22 is 5686 - [ ] Do not display showing...
There are several missing URS locations in the bed file for pombe that are present in the gff file for pombe. The logic for selecting xrefs to export differs between...
UCSC and ENSEMBL both define bed files as being 0 based: https://genome.ucsc.edu/FAQ/FAQformat.html#format1 http://www.ensembl.org/info/website/upload/bed.html while gff files are 1 based: https://genome.ucsc.edu/FAQ/FAQformat.html#format3 http://www.ensembl.org/info/website/upload/gff.html currently we export both files (at least for pome)...
When we export the genome coordinates for a species we do not add species specific ids to the gff files instead we use the more generic ids. For example look...