fusionCatcher = final-list_candidate-fusion-genes.txt sample is used to insert a comment into the top of the output files `-sample` is the only required argument for `assemble_results.R`.

Specific location of the cicero results file (). Specific location of the arriba results file (fusions.tsv). potential_fusion.txt must be in the same directory as result.txt for the import to work. The input files can also be specified manually.īase directory to search for input files. The program searches recursively from the current directory to find known files. On macOS, you can use Homebrew to install Postgres.Īssemble_results.R reads a set of fusion detection result files and produces an aggregated report with the overlapping fusion events predicted in the input files. Fusion calls with a high frequency are regarded as artifacts or unlikely to cause disease. The overlap code queries the database for the frequency of reported fusions. The database is used to store previously called fusions. Overlap interacts with a database of fusions. Install.packages( 'purrr ', repos = ' ') Postgres Database Setup Install.packages( 'magrittr ', repos = ' ')

Install.packages( 'dbplyr ', repos = ' ') Install.packages( 'RPostgres ', repos = ' ') Install.packages( 'optparse ', repos = ' ') Install.packages( 'devtools ', repos = ' ')

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