This java implementation can be used to run network analysis for gene expresssion data. 0. before start, replace the expr_matrix.txt file with your data and tar to lemontree.tar.gz
- hint: for expr_matrix.txt there is a blank in the first line before sample name
- hint2: for all genes , remove the first unused name
-
get the correct formatted expr_matrix.txt in the lemonontree.tar.gz(unzip to folder first); ./extractAllGene to update the gene in that folder; tar the folder back to lemontree.tar.gz again
-
upload all files to chtc
-
run the dagman file by condor_submit_dag lemontree.dag
-
select returned go_output.txt and tight_clusterings.txt file