Feature #487
closed
Show full PGP9 and PGP12 genomes on snp.med and GET-E
Added by Tom Clegg almost 14 years ago.
Updated about 13 years ago.
Description
"I'd like to have PGP9 & PGP12 genomes processed and visible on snp.med and get-evidence sites as soon as possible, so we can review them. It's not blocking me from working on the paper, but I want to have as much time as possible for us to look over them and evaluate new variants as needed." (Madeleine)
In evidence.oxf shell:
cd /home/get-evidence
cat public_html/config.php; mysqldump -ael -uevidence -p evidence >~/evidence-@date +%s@.sql
make update_genomes
In evidence.oxf mysql, remove links to previous data set (now that it is not listed as public on snp.med):
delete from variant_occurs where dataset_id='T/snp/32';
delete from datasets where dataset_id='T/snp/32';
gff for Henry Louis Gates Jr (aka PGP12) can be found at:
wsa2@orchestra:/groups/pgp/illumina/pgp12$ md5sum HLGjr-snp.gff
7b7bbb5cfd4cd1433d1859b7b3c12c63 HLGjr-snp.gff
Please process in Trait-o-matic and upload to GET-Evidence. Phenotype should be available soon. Cell-line identifiers should also be available soon.
Henry Louis Gates Jr.
Cambridge, Ma
male
cell line
PGP12
Illumina
wsa2@orchestra:/groups/pgp/illumina/pgp12$ md5sum HLGjr-snp.gff
7b7bbb5cfd4cd1433d1859b7b3c12c63 HLGjr-snp.gff
Abraham - uploaded it here:
PGP12 is now listed on evidence.personalgenomes.org as well.
Only remaining task is to choose a suitable image for PGP12.
OK, wikipedia image is up.
- Project changed from 19 to GET-Evidence
- Category deleted (
GET-Evidence)
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