tangermeme
Getting Started
tangermeme
Release History
Operations
Tutorial A1: Sequence Manipulation
Tutorial A2: Predictions
Tutorial A3: DeepLIFT/SHAP
Tutorial A4: Seqlets
Tutorial A5: Annotations
Tutorial B1: Marginalization
Tutorial B2: Ablation
Tutorial B3: Spacing
Tutorial B4: In Silico Saturation Mutagenesis (ISM)
Tutorial B5: Variant Effect
Tutorial B6: Design
Greedy Saturation Mutagenesis / Evolutionary Algorithms
Designing Constructs
Tutorial B7: Cartesian Product
Tutorial C1: I/O and Data Loading
Tutorial C2: Plotting
How To
How To: Reduce Friction and Save Time with Tangermeme
Vignettes
Attribution Trickiness and DeepLiftShap Implementations
Inspecting what Cis-Regulatory Features a Model Has Learned
Wrappers are Producitvity Hacks
Conclusions
Paper Notebooks
Initial Demonstrations of Tangermeme
Seqlet Calling and Downstream Analyses
API
ablate
annotate
design
ersatz
io
ism
marginalize
match
predict
product
seqlet
space
utils
variant_effect
tangermeme
variant_effect
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variant_effect