User: hsiaoyi0504

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hsiaoyi050440
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New User
Location:
Taiwan
Website:
https://hsiaoyi0504.gi...
Last seen:
7 months, 1 week ago
Joined:
1 year, 8 months ago
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h**********@gmail.com

Posts by hsiaoyi0504

<prev • 9 results • page 1 of 1 • next >
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Answer: A: Bulk Download Of Ncbi Gene "Summary" Field
... I would like to provide another solution. You can process from raw data. Take a look of my repo: https://github.com/hsiaoyi0504/gene_dictionary. ...
written 8 months ago by hsiaoyi050440
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Answer: A: gwas catalogue containing snp data from genome assembly hg19
... You can use liftover or CrossMap to switch between these two genome assembly version. ...
written 8 months ago by hsiaoyi050440
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What's the difference between GWAS Catalog and COSMIC database ?
... Hi there, I am new to analyze GWAS data. I see there are at least two major databases: - GWAS Catalog: https://www.ebi.ac.uk/gwas/home - COSMIC: https://cancer.sanger.ac.uk/cosmic It looks like they have similar dataset. Can anyone tell me what's the difference between this two databases ? ...
gwas snp written 8 months ago by hsiaoyi050440 • updated 8 months ago by Kevin Blighe46k
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Answer: A: Obtaining The Snp Rs Number With The Chromosomal Position
... I would like to share another approach. Using EDirect (https://dataguide.nlm.nih.gov/edirect/install.html). Then you can get the result by running following command: `esearch -db snp -query chr_id[CHR] AND organism[ORGN] AND chr_pos[CPOS]` (modify `chr_id`, `organism`, `chr_pos` to fit your appl ...
written 9 months ago by hsiaoyi050440
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Comment: C: Extract Sequence From The Genome?
... now it becomes https://www.biostars.org/p/56/. ...
written 9 months ago by hsiaoyi050440
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Comment: C: How can implement ensembl gene annotation pipeline for my data?
... Check this https://www.linode.com/docs/tools-reference/tools/find-files-in-linux-using-the-command-line/ ...
written 9 months ago by hsiaoyi050440
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Comment: C: How can implement ensembl gene annotation pipeline for my data?
... Maybe this repo: https://github.com/Ensembl/ensembl-annotation suits you, but it isn't been finished. ...
written 9 months ago by hsiaoyi050440
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Convert association data from gwas catalog to vcf format
... Hi there, I have a tsv file from GWAS-Catalog like this one in tsv format: ftp://ftp.ebi.ac.uk/pub/databases/gwas/releases/2018/11/05/gwas-catalog-associations_ontology-annotated.tsv However, for many annotation tools, they require input data as vcf format. Therefore, I would like to convert those ...
vcf gwas gwas-catalog snp written 9 months ago by hsiaoyi050440 • updated 9 months ago by Pierre Lindenbaum122k
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Choose max size of gene flanking DNA parameter in gff2gbSmallDNA.pl script included in augustus
... Hi there: I am trying to use augustus to do gene prediction, but the input file I have is in gff3 format. I am trying to convert gff3 files into genbank format using the script gff2gbSmallDNA.pl shipped with augustus. However, I don't know how to choose one of the parameter - max size of gene flan ...
augustus written 17 months ago by hsiaoyi050440 • updated 17 months ago by h.mon27k

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