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Update BWA settings based on feedback

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James A. Fellows Yates 2020-05-26 11:11:42 +02:00 committed by GitHub
parent e31e781f29
commit d070ed70d1
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1 changed files with 27 additions and 4 deletions
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31
conf/pipeline/eager/shh.config
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@ -3,8 +3,12 @@
params { params {
// Specific nf-core/configs params // Specific nf-core/configs params
config_profile_contact = 'James Fellows Yates (@jfy133)' config_profile_contact = 'James Fellows Yates (@jfy133)'
config_profile_description = 'JFY nf-core/eager SHH profile provided by nf-core/configs' config_profile_description = 'nf-core/eager SHH profile provided by nf-core/configs'
igenomes_base = "/projects1/public_data/igenomes/" igenomes_base = "/projects1/public_data/igenomes/"
// default BWA
bwaalnn = 0.04
bwaalnl = 32
} }
// Specific nf-core/eager process configuration // Specific nf-core/eager process configuration
@ -18,7 +22,26 @@ process {
} }
} }
params { profiles {
bwaalnn = 0.01 pathogen_loose {
bwaalnl = 32 params {
config_profile_description = 'Pathogen (loose) MPI-SHH profile, provided by nf-core/configs.'
bwaalnn = 0.01
bwaalnl = 16
}
}
pathogen_strict {
params {
config_profile_description = 'Pathogen (strict) MPI-SHH SDAG profile, provided by nf-core/configs.'
bwaalnn = 0.1
bwaalnl = 32
}
}
human {
params {
config_profile_description = 'Human MPI-SHH SDAG profile, provided by nf-core/configs.'
bwaalnn = 0.01
bwaalnl = 16500
}
}
} }