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authorPjotr Prins2020-11-28 14:46:44 +0000
committerPjotr Prins2020-11-28 14:46:44 +0000
commitb4c1212ccd8aa64ed31d584dcc7713bf392e9b97 (patch)
tree3386d50b183bd5d6cde9c1c5e4de0c1083c9ef47 /doc
parentc895358937111d554999db8617c2fde696634f13 (diff)
downloadpangemma-b4c1212ccd8aa64ed31d584dcc7713bf392e9b97.tar.gz
Manual: Remove information on gemmaf since it no longer applies.
Diffstat (limited to 'doc')
-rw-r--r--doc/manual.tex12
1 files changed, 1 insertions, 11 deletions
diff --git a/doc/manual.tex b/doc/manual.tex
index 94e686b..555d766 100644
--- a/doc/manual.tex
+++ b/doc/manual.tex
@@ -321,15 +321,6 @@ installing GSL library, please refer to
\url{http://www.gnu.org/s/gsl/}. For details on installing LAPACK
library, please refer to \url{http://www.netlib.org/lapack/}.
-If you are interested in fitting BSLMM for a large scale GWAS data set
-but have limited memory to store the entire genotype matrix, you could
-compile GEMMA in float precision. A float precision binary executable,
-named ``gemmaf", is available inside the ``bin" folder in the source
-code. To compile a float precision binary by yourself, you can first
-run ``d2f.sh" script inside the ``src" folder, and then enable
-``FORCE\_FLOAT" option in the Makefile. The float version could save
-about half of the memory without appreciable loss of accuracy.
-
\newpage
\section{Input File Formats}
@@ -1123,8 +1114,7 @@ compressed format.
Notice that a large memory is needed to fit BSLMM (e.g. may need 20 GB
for a data set with 4000 individuals and 400,000 SNPs), because the
software has to store the whole genotype matrix in the physical
-memory. The float version (gemmaf) can be used to save about half of
-the memory requirement without noticeable loss of accuracy.
+memory.
In default, GEMMA does not require the user to provide a relatedness
matrix explicitly. It internally calculates and uses the centered