mm10 / 11?

[AMChalkie]

Hi,

Any plans to add mouse annotation objects to the release?

Cheers
Alistair

[datngu]

Hi Alistair,

We currently don't have any plans to add mouse annotations to the releases.
In general, Circall can work with Ensembl annotations, and you can follow our instructions https://github.com/datngu/Circall#31-prepare-bsj-reference-database-and-sqlite-annotation-file to generate the needed annotations.

In case you are still in trouble with the annotation, I am willing to help!

Best wishes,
Dat

[AMChalkie]

No worries, example links for mouse mm10 are:

wget http://ftp.ensembl.org/pub/release-102/gtf/mus_musculus/Mus_musculus.GRCm38.102.gtf.gz
gunzip Mus_musculus.GRCm38.102.gtf.gz

wget http://ftp.ensembl.org/pub/release-102/fasta/mus_musculus/dna/Mus_musculus.GRCm38.dna.primary_assembly.fa.gz
gunzip Mus_musculus.GRCm38.102.dna.primary_assembly.fa.gz

wget http://ftp.ensembl.org/pub/release-102/fasta/mus_musculus/cdna/Mus_musculus.GRCm38.cdna.all.fa.gz
gunzip Mus_musculus.GRCm38.cdna.all.fa.gz