dohlee/chromoformer-1.1.3.zip
dohlee-chromoformer-309bf79
.github
workflows
python-publish.yml
1.1 kB
.gitignore
147 Bytes
LICENSE
35.1 kB
README.md
9.0 kB
chromoformer
README.md
319 Bytes
Snakefile
1.2 kB
__init__.py
125 Bytes
configs
default.yaml
377 Bytes
data.py
8.0 kB
modules.py
9.5 kB
net.py
17.6 kB
train.py
9.8 kB
util.py
375 Bytes
custom-preprocessing
ENCODE_download_helper.smk
1.0 kB
README.md
4.7 kB
config.yaml
392 Bytes
scripts
bdg2npz.py
896 Bytes
exp_profile_to_train_metadata.py
1.4 kB
prepare_ensg2tss.py
1.4 kB
prepare_frag2neighbors_and_pair2score.py
2.4 kB
prepare_npy_files.py
3.9 kB
prepare_tss2fragment_hic.py
1.0 kB
sample_max_30m_reads.py
611 Bytes
truncate_bam_reads_to_36bp.py
1.7 kB
demo
README.md
5.9 kB
chromoformer-reg-reproduction-E003-conf1-fold1.pt
64.5 MB
chromoformer-reproduction-E003-conf1-fold1.pt
64.5 MB
demo_data
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chromoformer_banner_small.png
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model1.png
94.5 kB
model2.png
76.0 kB
misc
convert_weight.py
2.9 kB
preprocessing
README.md
4.0 kB
Snakefile
4.8 kB
annotations
ensg2tss.pickle
5.5 MB
hg19.fa.sizes
365 Bytes
refGene.tsv
23.1 MB
tissue_mapping.csv
670 Bytes
tss2fragment.pickle
2.0 MB
environment.yaml
188 Bytes
img
pipeline.png
90.9 kB
scripts
bdg2npz.py
886 Bytes
extract_signals.py
2.1 kB
prepare_train_metadata.py
4.2 kB
train.csv
44.0 MB
setup.py
892 Bytes