ScreenPro2
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ScreenPro2
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CRISPR Screen Assays
NGS screen processing module
Phenotype calculation modules
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Data loading module
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ScreenPro2
Index
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Index
B
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C
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D
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F
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G
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L
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M
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P
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R
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S
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V
B
build_counts_anndata() (screenpro.ngs.GuideCounter method)
buildPhenotypeData() (screenpro.assays.PooledScreens method)
C
calculateDelta() (in module screenpro.phenoscore.delta)
calculateDrugScreen() (screenpro.assays.PooledScreens method)
calculateDrugScreenDESeq() (screenpro.assays.PooledScreens method)
calculateFlowBasedScreen() (screenpro.assays.PooledScreens method)
compareByReplicates() (in module screenpro.phenoscore.delta)
compareByTargetGroup() (in module screenpro.phenoscore.delta)
copy() (screenpro.assays.PooledScreens method)
countNormalization() (screenpro.assays.PooledScreens method)
D
DataDashboard (class in screenpro.dashboard)
drawVolcano() (screenpro.assays.PooledScreens method)
DrugScreenDashboard (class in screenpro.dashboard)
F
fastq_to_count_dual_guide() (in module screenpro.ngs.cas9)
fastq_to_count_single_guide() (in module screenpro.ngs.cas9)
filterLowCounts() (screenpro.assays.PooledScreens method)
G
GammaVolcanoPlot() (screenpro.dashboard.DrugScreenDashboard method)
generatePseudoGeneAnnData() (in module screenpro.phenoscore.delta)
get_counts_matrix() (screenpro.ngs.GuideCounter method)
getBestTargetByTSS() (in module screenpro.phenoscore.delta)
getPhenotypeData() (in module screenpro.phenoscore.delta)
getPhenotypeScores() (screenpro.assays.PooledScreens method)
GImaps (class in screenpro.assays)
GuideCounter (class in screenpro.ngs)
L
label_as_black() (in module screenpro.plotting.pheno_plots)
label_by_color() (in module screenpro.plotting.pheno_plots)
label_resistance_hit() (in module screenpro.plotting.pheno_plots)
label_sensitivity_hit() (in module screenpro.plotting.pheno_plots)
listPhenotypeScores() (screenpro.assays.PooledScreens method)
load_cas9_sgRNA_library() (in module screenpro.load)
load_counts_matrix() (screenpro.ngs.GuideCounter method)
load_library() (screenpro.ngs.GuideCounter method)
loadScreenProcessingData() (in module screenpro.load)
M
map_to_library_dual_guide() (in module screenpro.ngs.cas9)
map_to_library_single_guide() (in module screenpro.ngs.cas9)
matrixStat() (in module screenpro.phenoscore.phenostat)
module
screenpro.assays
screenpro.dashboard
screenpro.load
screenpro.ngs
screenpro.ngs.cas12
screenpro.ngs.cas9
screenpro.phenoscore
screenpro.phenoscore.delta
screenpro.phenoscore.deseq
screenpro.phenoscore.phenostat
screenpro.plotting.pheno_plots
screenpro.plotting.qc_plots
multipleTestsCorrection() (in module screenpro.phenoscore.phenostat)
P
plotCountDistribution() (in module screenpro.plotting.qc_plots)
plotReplicateScatter() (in module screenpro.plotting.qc_plots)
PooledScreens (class in screenpro.assays)
R
RhoGammaScatter() (screenpro.dashboard.DrugScreenDashboard method)
RhoVolcanoPlot() (screenpro.dashboard.DrugScreenDashboard method)
runPhenoScore() (in module screenpro.phenoscore)
S
screenpro.assays
module
screenpro.dashboard
module
screenpro.load
module
screenpro.ngs
module
screenpro.ngs.cas12
module
screenpro.ngs.cas9
module
screenpro.phenoscore
module
screenpro.phenoscore.delta
module
screenpro.phenoscore.deseq
module
screenpro.phenoscore.phenostat
module
screenpro.plotting.pheno_plots
module
screenpro.plotting.qc_plots
module
V
volcano_plot() (in module screenpro.plotting.pheno_plots)