| compute_blockDdenom {poolfstat} | R Documentation |
compute_blockDdenom
Description
Compute the denominator of the Dstat for all quadruplet configuration and each block-jackknife block (if any) and overall SNPs (within or outside blocks)
Usage
.compute_blockDdenom(refcount, totcount, nblocks, block_id, verbose)
Arguments
refcount |
Matrix of nsnpxnpop with counts (genotype or reads) for the reference allele |
totcount |
Matrix of nsnpxnpop with total counts or read coverages |
nblocks |
Integer giving the number of block-jackknife blocs (may be 0 if no block-jackknife) |
block_id |
Integer vector of length nsnps with the (0-indexed) id of the block to which each SNP belongs (-1 for SNPs outside blocks) |
verbose |
Logical (if TRUE progression bar is printed on the terminal) |
Details
Compute the denominator of the Dstat for all quadruplet configuration and each block-jackknife block (if any) and overall SNPs (within or outside blocks)
Value
Return a matrix with nf4=(npops*(npops-1)/2)*((npops-2)*(npops-3)/2)/2 rows and nblocks+1 columns giving the mean Dstat-denominator (1-Q2ab)(1-Q2cd) for all quadruplet configuration and within each block-jackknife sample and over all SNPs (last column)
Examples
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