plink pfilter
This is a comprehensive update to Shaun Purcell's PLINK command-line program, developed by Christopher Chang with support from the NIH-NIDDK's ... ,--exclude does the same for all listed variants. Note that this is slightly different from PLINK 1.07's behavior when the main input fileset contains duplicate variant ...
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 plink pfilter 相關參考資料
Association analysis - PLINK 1.9 - cog-genomics.org
Refer to the PLINK 1.07 documentation for more details about the statistical tests employed. ..... plink --bfile main_data --assoc --pfilter 0.001 --out report1. https://www.cog-genomics.org PLINK 1.9 - cog-genomics.org
This is a comprehensive update to Shaun Purcell's PLINK command-line program, developed by Christopher Chang with support from the NIH-NIDDK's ... https://www.cog-genomics.org Input filtering - PLINK 1.9 - cog-genomics.org
--exclude does the same for all listed variants. Note that this is slightly different from PLINK 1.07's behavior when the main input fileset contains duplicate variant ... https://www.cog-genomics.org Report postprocessing - PLINK 1.9 - cog-genomics.org
--annotate reads a variant-based PLINK report, and writes an annotated version ... If the PLINK report contains a 'P' column, you can use --pfilter to filter out lines ... https://www.cog-genomics.org Complete flag index - PLINK 1.9 - cog-genomics.org
--bmerge, Merge a PLINK 1 binary fileset with the main input fileset. ..... perm-count". --pfilter, Only include variants with small p-values in association test reports. https://www.cog-genomics.org Association analysis - PLINK: Whole genome data analysis toolset
Naturally, it will take 100 times longer... If you are testing a very large number of phenotypes, it might be worth specifying --pfilter also, to reduce ... http://zzz.bwh.harvard.edu PLINK
--pfilter 1e-3 which will, for example, only report statistics with p-values less than 1e-3. NOTE This is operation for the basic association tests, ... http://zzz.bwh.harvard.edu Running PLINK - PLINK: Whole genome data analysis toolset
The name of the file is by default plink.ext where .ext will change depending ..... You might want to use the --pfilter command in this case, to only ... http://zzz.bwh.harvard.edu Result annotation - PLINK: Whole genome data analysis toolset
plink --annotate myfile.assoc attrib=snp129.attrib.gz ranges=glist.txt ... Similarly, the P field is not required, unless --pfilter has been specified. http://zzz.bwh.harvard.edu PLINK: Whole genome data analysis toolset
Added --make-perm-pheno N} to create plink.pphe ... Now --pfilter works on .adjusted output files also; Changed default behavior to not set pheotype to missing ... http://zzz.bwh.harvard.edu |