Where can I obtain hg38_icgc21.txt?

Question

Where can I obtain hg38_icgc21.txt?

Opened this issue 4 years ago · 7 comments

Hi,

I am trying to run python CancerVar.py -b hg38 -i input.vcf --input_type=VCF -o ./results/. which does not work because hg38_icgc21.txt is not available.

/data/software/annovar/annotate_variation.pl -buildver hg38 -downdb -webfrom annovar icgc21 /data/software/annovar/humandb tries to download the resource from http://www.openbioinformatics.org/annovar/download/hg38_icgc21.txt.gz. However, this website is not available anymore.

Where can I get the hg38_icgc21.txt file

Thanks for helping!

Answer 1 · 2020-04-21T13:13:45.000Z

we complied hg38_icgc21.txt at here:
http://cancervar.wglab.org/databases/

Answer 2 · 2020-04-21T14:20:49.000Z

Thanks a lot!

Answer 3 · 2021-05-17T02:09:30.000Z

Hi,

I cant download data from this site.
http://cancervar.wglab.org/databases/

hg19_cosmic91.txt does not exist error.

Thank you in advance

Answer 4 · 2021-05-17T03:21:50.000Z

you can click to get these files:
https://cancervar.wglab.org/databases/hg38_cosmic91.txt.gz ;
https://cancervar.wglab.org/databases/hg38_cosmic91.txt.idx.gz ;
https://cancervar.wglab.org/databases/hg19_cosmic91.txt.gz ;
https://cancervar.wglab.org/databases/hg19_cosmic91.txt.idx.gz ;

Answer 5 · 2021-05-17T04:52:40.000Z

Thank you very much.
I am doing research on the Lymphoma Cancer detection project.
I hope this program helps me.

Again, Thank you very much for your great contributions.

Answer 6 · 2021-05-18T00:07:30.000Z

Hello
I have downloaded cosmic data sets. but unable to download icgc data sets.
can you please help?
I can't go to the link https://cancervar.wglab.org/databases/

Thank you

Answer 7 · 2021-05-18T00:13:20.000Z

icgc21 is updated by icgc28. you can download them from annovar.