VEP run statistics
VEP version (API) | 93 (93) |
Annotation sources | Cache: /opt/vep_cache/homo_sapiens/93_GRCh38 |
Species | homo_sapiens |
Command line options | --assembly GRCh38 --cache --coding_only --dir_cache /opt/vep_cache --dir_plugins /opt/vep_cache/Plugins --everything --fasta /opt/vep_cache/homo_sapiens/93_GRCh38/Homo_sapiens.GRCh38.dna.toplevel.fa.gz --force_overwrite --fork 8 --input_file /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vcf --offline --output_file /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vep.vcf --pick --plugin Downstream --terms SO --transcript_version --vcf |
Start time | 2018-10-29 22:12:15 |
End time | 2018-10-29 22:12:59 |
Run time | 44 seconds |
Input file | /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vcf |
Output file | /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vep.vcf |
General statistics
Lines of input read | 106394 |
Variants processed | 106394 |
Variants filtered out | 0 |
Novel / existing variants | 1688 (1.6) / 104706 (98.4) |
Overlapped genes | 559 |
Overlapped transcripts | 632 |
Overlapped regulatory features | 0 |