Moderator: zx8754

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zx87546.8k
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"If you torture the data long enough, it will confess." - Ronald Coase

Posts by zx8754

<prev • 801 results • page 1 of 81 • next >
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Comment: C: ggplot2 returns empty plot
... Hello F! We believe that this post does not fit the main topic of this site. Not related to bioinformatics, didn't work because of typo: `"chr6"` should b `6`, also check the class of the column `class(all_depth$Chr)`. For this reason we have closed your question. This allows us to keep the site ...
written 1 hour ago by zx87546.8k
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Comment: C: Merge VCFs with overlapping samples
... `merge` would want to have unique samples over vcfs, we could use `--force-samples` but then we get suffixes which OP doesn't want. ...
written 1 day ago by zx87546.8k
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Answer: A: How to snps map gene in R (without R packages)
... Using *data.table*: # example data (partly stolen from Kevin's answer) SNPs <- data.table( Chr = c(1,1,2,2,3,3,4), start = c(2,3,4,7,5,13,13), end = c(2,3,4,7,5,13,13), key = c("Chr", "start", "end")) genes <- data.table( Chr = c(1,2,2,3,3,4), ...
written 1 day ago by zx87546.8k
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Comment: C: Submitting R package in Bioconductor with Plink and vcftools Dependencies
... If the package is using Plink and vcftools, maybe just exclude them and explain in the manuals that you need input to be in certain format. ...
written 1 day ago by zx87546.8k
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Comment: C: Submitting R package in Bioconductor with Plink and vcftools Dependencies
... Posted at [support.bioconductor](https://support.bioconductor.org/p/119345/), too. ...
written 1 day ago by zx87546.8k
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Comment: C: Extract allele count from gnomAD using R
... **varsome** has an API, it needs a login, and might not be free. - https://api.varsome.com/lookup/1:55516888:G:GA/1019?add-all-data=1&add-ACMG-annotation=1 ...
written 3 days ago by zx87546.8k
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Comment: C: Extract allele count from gnomAD using R
... Related post: https://www.biostars.org/p/370629/ ...
written 3 days ago by zx87546.8k
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Comment: A: Extract allele count from gnomAD using R
... Not API, but maybe this bioconductor package - [MafDb.gnomAD.r2.0.1.GRCh38](http://bioconductor.org/packages/release/data/annotation/html/MafDb.gnomAD.r2.0.1.GRCh38.html) ? Or we can always try and scrape the table, maybe see `rvest`. ...
written 3 days ago by zx87546.8k
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Comment: C: Joining multiple columns from different dataframes in R
... Hello mb314! We believe that this post does not fit the main topic of this site. More suitable to StackOverflow, and this type of questions been asked many times before: - [Simultaneously merge multiple data.frames in a list](https://stackoverflow.com/questions/8091303) For this reason we have c ...
written 4 days ago by zx87546.8k
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Comment: C: LD filter for GWAS with plink
... Related posts: - https://www.biostars.org/p/370536/ - https://www.biostars.org/p/299276/ ...
written 5 days ago by zx87546.8k

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