Cancer Type: COREAD
Date: 2016-06-21 09:21:57
Number of samples:
Total mutations:
Driver mutations: (known: predicted: )
Biomarkers of the tumor:
Biomarkers in other tumors:

  The results of the analysis may take a while even if only few mutations are submitted. Please, check the examples to have an overview of the CGI results.

09:27:09 INFO: Running mutation analysis with OncodriveMUT
09:27:12 INFO: Processing the mutations input file
09:27:12 INFO: The detected format is gtf
09:27:12 WARNING: The ref and alt alleles will be complemented depending on the strand column content
09:27:12 INFO: Annotating the nucleotide mutations to protein coordinates per transcript
Running TransVar (21 seconds, 529720 microseconds ago)
09:27:34 WARNING: There are 1 mutations that can not be mapped to a certain gene transcript
09:27:34 INFO: Selecting one transcript per gene for annotation..
09:27:35 INFO: Retrieving CADD scores
Running CADD (1 minute, 40 seconds ago)
09:29:21 INFO: Matching with several metadata files
09:29:23 INFO: Running the driver prediction
09:29:23 INFO: Considering as sample specific the 119 driver genes of tumors: COREAD-PR,COREAD
09:29:23 INFO: File created with 175 entries: driver_prediction_mutations.tsv
09:29:23 INFO: Arranging the output
09:29:23 WARNING: There are 2 input mutations that have been not processed due to format/mapping problems
09:29:23 INFO: File created with 173 entries: mutation_analysis.tsv
09:29:23 INFO: Summary of the results created summary.tsv
09:29:24 INFO: Alteration analysis finished
09:29:24 INFO: Running CNA
09:29:24 INFO: Processing the Copy Number Alterations input file
09:29:24 INFO: The detected format is free
09:29:24 INFO: Matching with the CNA drivers database
09:29:24 INFO: Formating the output
09:29:24 INFO: Alteration analysis finished
09:29:24 INFO: Running drug prescription
09:29:25 INFO: TCGI prescription version 1.0.0
09:29:25 INFO: Biomarkers v1.0 build 20160620
09:29:25 INFO: Bioactivities v1.0 build 20160618
09:29:25 INFO: Cancer types v1.0 build 20160610
09:29:25 INFO: Loading biomarkers
09:29:25 INFO: Loading bioactivities
09:29:25 INFO: Loading alterations
09:29:25 INFO: Checking prescriptions
09:29:26 INFO: Write biomarkers results
09:29:26 INFO: Write bioactivities results
09:29:26 INFO: Prescription finished
09:29:26 INFO: Compress results