Changes

=== Creating Marker-Based Kinship Matrix ===

=== Creating Marker-Based Kinship Matrix ===

Create kinship matrix (IBS or BN, BN is preferred) using emmax-kin. Make sure that both .tped and .tfam file exist with the same prefix.

Create kinship matrix (IBS or BN, BN is preferred) using emmax-kin. Make sure that both .tped and .tfam file exist with the same prefix. The intel implementation of emmax-kin should be orders of magnitude faster than previous implementation

  IBS matrix 
 % emmax-kin-intel64 -v -s -d 10 [tped_prefix] (will generate [tped_prefix].aIBS.kinf)

  IBS matrix 
 % emmax-kin-intel64 -v -s -d 10 [tped_prefix] (will generate [tped_prefix].aIBS.kinf)

  BN (Balding-Nichols) matrix
 % emmax-kin-intel64 -v -d 10 [tped_prefix] (will generate [tped_prefix].aBN.kinf)

  BN (Balding-Nichols) matrix
 % emmax-kin-intel64 -v -d 10 [tped_prefix] (will generate [tped_prefix].aBN.kinf)