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WGLab / doc-ANNOVAR

Documentation for the ANNOVAR software
http://annovar.openbioinformatics.org
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Access to previous versions of ANNOVAR #219

Closed senbaikang closed 1 year ago

senbaikang commented 1 year ago

Hello Prof. Wang,

Thank you for making ANNOVAR available.

I wonder if it is possible to have access to previous versions of ANNOVAR, specifially, to version 2020 Jun. 08?

Thank you in advance for your help.

Best regards, Senabi

kaichop commented 1 year ago

This is the latest version already.

On Tue, Mar 28, 2023 at 5:10 AM Senbai Kang @.***> wrote:

Hello Prof. Wang,

Thank you for making ANNOVAR available.

I wonder if it is possible to have access to previous versions of ANNOVAR, specifially, to version 2020 Jun. 08?

Thank you in advance for your help.

Best regards, Senabi

— Reply to this email directly, view it on GitHub https://github.com/WGLab/doc-ANNOVAR/issues/219, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABNG3OA77TVTSLF53WDVAJ3W6KTHHANCNFSM6AAAAAAWKISYRM . You are receiving this because you are subscribed to this thread.Message ID: @.***>

senbaikang commented 1 year ago

Thank you for the reply!

How about previous versions of databases, such as hg19_refGene and hg19_ensGene? Are they archived somewhere that I can download from?

Thank you in advance!

kaichop commented 1 year ago

The last update of refGene is 2020 in UCSC and there is no new version since then (see https://annovar.openbioinformatics.org/en/latest/user-guide/download/) For Gencode (which is ensGene, you can download the version 40 and 41 using the ensGene40 ensGene41 keyword. I did not prepare v42. The current version is v43.

On Tue, Mar 28, 2023 at 3:16 PM Senbai Kang @.***> wrote:

Thank you for the reply!

How about previous versions of databases, such as hg19_refGene and hg19_ensGene? Are they archived somewhere that I can download from?

Thank you in advance!

— Reply to this email directly, view it on GitHub https://github.com/WGLab/doc-ANNOVAR/issues/219#issuecomment-1487470374, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABNG3OD4OXSKUZCACS3O6ODW6M2IJANCNFSM6AAAAAAWKISYRM . You are receiving this because you commented.Message ID: @.***>

senbaikang commented 1 year ago

Great! Thank you for your information :)

I am actually looking for the ensGene database built around 2020~2021 for consistency reasons, and I couldn't find any versions earlier than ensGene40 on the Annovar website. Do you by any chance have them backed up somewhere?

Thank you again for your kind help!

Best, Senbai

kaichop commented 1 year ago

you can check https://hgdownload.soe.ucsc.edu/goldenPath/hg38/database/ to find all the wgEncodeGencode*** files, and then determine which one you need. Then you can build the annovar database yourself easily using instructions in the website.

On Wed, Mar 29, 2023 at 1:56 AM Senbai Kang @.***> wrote:

Great! Thank you for your information :)

I am actually looking for the ensGene database built around 2020~2021 for consistency reasons, and I couldn't find any versions earlier than ensGene40 on the Annovar website. Do you by any chance have them backed up somewhere?

Thank you again for your kind help!

Best, Senbai

— Reply to this email directly, view it on GitHub https://github.com/WGLab/doc-ANNOVAR/issues/219#issuecomment-1487988247, or unsubscribe https://github.com/notifications/unsubscribe-auth/ABNG3OEHKU56T5F5AUVSCDLW6PFJJANCNFSM6AAAAAAWKISYRM . You are receiving this because you commented.Message ID: @.***>