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biopet.biopet
Commits
e430eb82
Commit
e430eb82
authored
Apr 27, 2016
by
Peter van 't Hof
Browse files
Setting default for haplotypecaller
parent
ec59d68a
Changes
1
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public/shiva/src/main/scala/nl/lumc/sasc/biopet/pipelines/shiva/ShivaTrait.scala
View file @
e430eb82
...
...
@@ -36,6 +36,8 @@ trait ShivaTrait extends MultisampleMappingTrait with Reference with TargetRegio
Some
(
shiva
)
}
override
def
defaults
=
Map
(
"haplotypecaller"
->
Map
(
"stand_call_conf"
->
30
,
"stand_emit_conf"
->
0
))
/** Method to make the variantcalling namespace of shiva */
def
makeVariantcalling
(
multisample
:
Boolean
=
false
)
:
ShivaVariantcallingTrait
with
QScript
=
{
if
(
multisample
)
new
ShivaVariantcalling
(
qscript
)
{
...
...
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