Registration request for Patiria miniata NCBI assembly

[andradejon]

I'd like to have the genome for Patiria miniata registered for the purpose of forging a BSgenome package. The assembly is ASM1570657v1 (Pmin_3.0) and below is the link to the NCBI page:

https://www.ncbi.nlm.nih.gov/assembly/GCF_015706575.1/

Let me know if there's anything I can clear up or help with. Thank you very much.

[hpages]

Hi,

I anticipated your request and added this yesterday. See commit 62a2e8673700411c0a650bf0476142b57764d6a9.

This is in GenomeInfoDb 1.27.12 which is part of BioC 3.13 (requires R 4.1). GenomeInfoDb 1.27.12 will become available to BioC 3.13 users via BiocManager::install() in the next 24 hours or so.

Note that BioC 3.13 is still officially in development but you can already install and use it if you have R 4.1. It will be officially released next week. See https://bioconductor.org/developers/release-schedule/

Cheers, H.

[andradejon]

Thank you so much!

On Tue, May 11, 2021, 12:58 PM Hervé Pagès @.***> wrote:

Hi,

I anticipated your request and added this yesterday. See commit 62a2e86 https://github.com/Bioconductor/GenomeInfoDb/commit/62a2e8673700411c0a650bf0476142b57764d6a9 .

This is in GenomeInfoDb 1.27.12 which is part of BioC 3.13 (requires R 4.1). GenomeInfoDb 1.27.12 will become available to BioC 3.13 users via BiocManager::install() in the next 24 hours or so.

Note that BioC 3.13 is still officially in development but you can already install and use it if you have R 4.1. It will be officially released next week. See https://bioconductor.org/developers/release-schedule/

Cheers, H.

— You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub https://github.com/Bioconductor/GenomeInfoDb/issues/24#issuecomment-838828674, or unsubscribe https://github.com/notifications/unsubscribe-auth/AR2RUYROEPWO5Z7KYJV6YKLTNFO2ZANCNFSM44VWVYLQ .

[truong128]

Hi Admin and all colleges

I'd like to add this Akata genome "https://www.ncbi.nlm.nih.gov/nuccore/KC207813.1/" into the GenomeInfoDb to forge a BSgenome package. I really appreciate it if anyone please help to add it or show me how to add it. Thanks a lot.

Truong

[hpages]

@truong It's a really bad idea to ask your question in an issue that was closed 3 years ago, especially since your request is different from the original request of this issue.

Please take a look at the BSgenomeForge package here for how to forge a BSgenome data package for your NCBI assembly. Note that the assembly does not need to be registered in the GenomeInfoDb package for that.

If you need further help with this, please ask on the Bioconductor support site or open an issue in the BSgenomeForge issue tracker here.

Best, H.

[truong128]

Hi H.

Thank you very much for your help. I appreciate that.