023)
> # GenomicFeatures version at creation time: 1.54.1
> # RSQLite version at creation time: 2.3.1
> # DBSCHEMAVERSION: 1.2
>
> genomeAnnotation <-
> createGenomeAnnotation(BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0)
> geneAnnotation <- createGeneAnnotation(TxDb = tx,
geneAnnotation <- createGeneAnnotation(TxDb = tx, OrgDb = org.Hs.eg.db)
Best,
Jim
From: Christian Arnold
Sent: Tuesday, December 12, 2023 9:35 AM
To: Vincent Carey ; James W. MacDonald
Cc: bioc-devel@r-project.org
Subject: Re: [Bioc-devel] Missing CHM13v2.0 TxDB and OrgDb objects
Dear Vincent
l Message-
> From: Bioc-devel On Behalf Of
> Vincent Carey
> Sent: Sunday, December 10, 2023 1:44 PM
> To: Christian Arnold
> Cc: bioc-devel@r-project.org
> Subject: Re: [Bioc-devel] Missing CHM13v2.0 TxDB and OrgDb objects
>
> Good question.
ioc-devel On Behalf Of Vincent
> Carey
> Sent: Sunday, December 10, 2023 1:44 PM
> To: Christian Arnold
> Cc: bioc-devel@r-project.org
> Subject: Re: [Bioc-devel] Missing CHM13v2.0 TxDB and OrgDb objects
>
> Good question. I believe these will be forthcoming soon. In the me
lf Of Vincent Carey
Sent: Sunday, December 10, 2023 1:44 PM
To: Christian Arnold
Cc: bioc-devel@r-project.org
Subject: Re: [Bioc-devel] Missing CHM13v2.0 TxDB and OrgDb objects
Good question. I believe these will be forthcoming soon. In the mean time you
can create your own. See, for example
Good question. I believe these will be forthcoming soon. In the mean time
you can
create your own. See, for example
https://github.com/vjcitn/BiocT2T/blob/devel/inst/scripts/makeTxDb.R
It's an active area so you can pull a gff file from
https://s3-us-west-2.amazonaws.com/human-pangenomics/inde
Hello, I am working with the new human T2T-CHM13v2.0 assembly and while
a BSgenome package already exists
(BSgenome.Hsapiens.NCBI.T2T.CHM13v2.0), I could not find the
corresponding TxDb and OrgDb packages. Is there any information when
they may also become available so it is easier to work with t
