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| -rw-r--r-- | README.md | 9 | ||||
| -rw-r--r-- | example/demo.txt | 4 |
2 files changed, 9 insertions, 4 deletions
@@ -88,11 +88,14 @@ numerical libraries. gemma.linux.gz` to unpack the file. -## Quick start +## Help materials -1. Work through the demo. *Give more details here.* ++ [The GEMMA manual](doc/manual.pdf). -2. Read the manual and run `gemma -h`. *Give more details here.* ++ [Detailed example with HS mouse data](example/demo.txt). + ++ [Tutorial on GEMMA for genome-wide association +analysis](https://github.com/rcc-uchicago/genetic-data-analysis-2). ## Citing GEMMA diff --git a/example/demo.txt b/example/demo.txt index 9452e04..9b22175 100644 --- a/example/demo.txt +++ b/example/demo.txt @@ -98,7 +98,9 @@ chr rs ps n_miss allele1 allele0 af beta_1 beta_2 Vbeta_1_1 Vbeta_1_2 Vbeta_2_2 ## To fit BSLMM in the training set: ## To fit a quantitative trait -../bin/gemma -g mouse_hs1940.geno.txt.gz -p mouse_hs1940.pheno.txt -n 2 -a mouse_hs1940.anno.txt -bslmm -o mouse_hs1940_CD8_bslmm -w 1000 -s 10000 -seed 1 +../bin/gemma -g mouse_hs1940.geno.txt.gz -p mouse_hs1940.pheno.txt -n 2 \ + -a mouse_hs1940.anno.txt -bslmm -o mouse_hs1940_CD8_bslmm \ + -w 1000 -s 10000 -seed 1 # the following three files may be of most importance: # the *.hyp.txt contains a column for pve and pge |