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Y24-265 - RNA FFPE pipeline #2004

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Y24-265 - RNA FFPE pipeline #2004

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f472079
feat(rnaf): adds rna ffpe pipeline, robot steps and purposes
BenTopping Oct 17, 2024
3a9deb7
feat(rnaf): removes lrnaf cherrypick in favour of using lbr cherrypick
BenTopping Oct 18, 2024
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15 changes: 15 additions & 0 deletions config/pipelines/rna_rnaf.yml
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Original file line number Diff line number Diff line change
@@ -0,0 +1,15 @@
---
RNA FFPE:
pipeline_group: RNA
filters:
request_type_key: limber_rnaf
library_type: RNA FFPE
library_pass: LB Lib PCR-XP
relationships:
LBR Cherrypick: LRNAF Frag
LRNAF Frag: LB cDNA
LB cDNA: LB cDNA XP
LB cDNA XP: LB End Prep
LB End Prep: LB Lib PCR
LB Lib PCR: LB Lib PCR-XP
# Then feeds into the standard limber_multiplexing
3 changes: 3 additions & 0 deletions config/purposes/rna_plates.yml
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Original file line number Diff line number Diff line change
Expand Up @@ -30,3 +30,6 @@ LB cDNA:
LB cDNA XP:
:asset_type: plate
:presenter_class: Presenters::PermissivePresenter
LRNAF Frag:
:asset_type: plate
:presenter_class: Presenters::PermissivePresenter
46 changes: 46 additions & 0 deletions config/robots.rb
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Expand Up @@ -4043,4 +4043,50 @@
}
}
)

custom_robot(
'bravo-lbr-cherrypick-to-lrnaf-frag',
name: 'Bravo LBR Cherrypick => LRNAF Frag',
require_robot: true,
beds: {
bed(8).barcode => {
purpose: 'LBR Cherrypick',
states: ['passed'],
label: 'Bed 8'
},
car('2,3').barcode => {
purpose: 'LRNAF Frag',
states: ['pending'],
label: 'Carousel 2,3',
parent: bed(8).barcode,
target_state: 'passed'
}
}
)

custom_robot(
'bravo-lrnaf-frag-to-lb-cdna',
name: 'Bravo LRNAF Frag => LB cDNA',
require_robot: true,
beds: {
bed('8').barcode => {
purpose: 'LRNAF Frag',
states: ['passed'],
label: 'Bed 8'
},
car('3,4').barcode => {
purpose: 'LB cDNA',
states: ['pending'],
label: 'Carousel 3,4',
parent: bed(8).barcode,
target_state: 'started'
},
car('4,3').barcode => {
purpose: 'LB cDNA XP',
states: ['pending'],
label: 'Carousel 4,3',
parent: car('3,4').barcode
}
}
)
end
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