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ops: [analyze]
model: {
path: /absolute/path/to/model/,
class: ModelArchitectureClassName,
class_args: {
arg1: val1,
arg2: val2
non_strand_specific: mean
analyze_sequences: !obj:selene_sdk.predict.AnalyzeSequences {
trained_model_path: /path/to/trained/model.pth.tar,
sequence_length: 1000,
features: !obj:selene_sdk.utils.load_features_list {
input_path: /path/to/distinct_features.txt
batch_size: 64,
use_cuda: True,
write_mem_limit: 5000
in_silico_mutagenesis: {
fa_files: [
save_data: ["logits", "predictions"],
output_dir: /path/to/output_dir,
# select whether to use the sequence name (description above each sequence
# in the FASTA file) as part of the resulting output file
use_sequence_name: False
random_seed: 123
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