Permalink
Fetching contributors…
Cannot retrieve contributors at this time
51 lines (45 sloc) 1.59 KB
defined_as: kipoi.model.KerasModel
args:
weights:
url: https://zenodo.org/record/1452399/files/model.weights.h5?download=1
md5: 2a0ae0a29337eb8106d65e1baeda85d1
arch:
url: https://zenodo.org/record/1452399/files/model.arch?download=1
md5: 6903bcab337a6753ad010f43f208df42
backend: tensorflow
image_dim_ordering: tf
info:
authors:
- name: Nancy Xu
github: xnancy
email: xnancy@stanford.edu
trained_on: "Chromosomes 1, 8, and 21 are test set, 9 is validation set, the remaining data is training data."
doc: >
Large-scale multi-task convolutional model for predicting chromatin accessility model.
Model was trained genome-wide accessibility measures across 421 biosamples (cell lines or tissues) from Roadmap and ENCODE.
tags:
- DNA accessibility
default_dataloader:
defined_as: kipoiseq.dataloaders.SeqIntervalDl
default_args:
auto_resize_len: 1000
dependencies:
conda:
- h5py
pip:
- tensorflow<=1.4.1
- keras==1.2.2
- kipoiseq
schema:
inputs:
shape: (1000,4)
doc: "1000 base pair sequence of one-hot encoding ACGT"
targets:
shape: (421,)
doc: "Binary 0/1 output for chromatin accessibility in the designated range. 0 = inaccessible, 1 = accessible."
column_labels: task_names.txt
test:
expect:
url: https://s3.eu-central-1.amazonaws.com/kipoi-models/predictions/14f9bf4b49e21c7b31e8f6d6b9fc69ed88e25f43/Divergent421/predictions.h5
md5: 62da0ac731f323ea54ee6e30c38e0722
precision_decimal: 5