3,045
edits
Changes
From Genome Analysis Wiki
Jump to navigationJump to searchGotCloud: Variant Calling Options (view source)
Revision as of 10:52, 29 October 2014
, 10:52, 29 October 2014→Hard Filtering Options
* To remove any filter, set it to blank in your configuration file
* To remove any filter, set it to blank in your configuration file
For additional hard filter information, see: [[GotCloud: Filters]]
'''Basic per variant filters:'''
'''Basic per variant filters:'''
! Filter !! Configuration Key !! VCF value checked !! Filter Variants with... !! Default Value
! Filter !! Configuration Key !! VCF value checked !! Filter Variants with... !! Default Value
|-
|-
| max depth || FILTER_MAX_SAMPLE_DP || rowspan="2" |INFO:DP || > ''conf value'' * total number of samples || 1000
| max depth || FILTER_MAX_SAMPLE_DP || rowspan="2" |INFO:DP || > ''conf value'' * total number of samples || 1000[[
|-
|-
| min depth ||FILTER_MIN_SAMPLE_DP || < ''conf value'' * total number of samples || 1
| min depth ||FILTER_MIN_SAMPLE_DP || < ''conf value'' * total number of samples || 1
