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.tsv --pick --plugin Downstream --tab --terms SO --transcript_version |
| Start time | 2018-10-29 22:15:33 |
| End time | 2018-10-29 22:16:16 |
| Run time | 43 seconds |
| Input file | /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vcf |
| Output file | /workspace/germline/WGS_Norm_HC_calls_recalibrated.PASS.vep.tsv |
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 |