GitHub - kundajelab/klf_smf: Paper on KLF SMF with the Will Greenleaf lab

Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
__pycache__		__pycache__
data		data
extended_motif_flank_analysis		extended_motif_flank_analysis
test		test
241114_array_data_motif_mutations.csv		241114_array_data_motif_mutations.csv
Hypothetical_contribution_ENCSR550HCT.pdf		Hypothetical_contribution_ENCSR550HCT.pdf
Hypothetical_contribution_ENCSR859BMR.pdf		Hypothetical_contribution_ENCSR859BMR.pdf
Untitled.ipynb		Untitled.ipynb
core_motif_analysis-ENCSR550HCT.ipynb		core_motif_analysis-ENCSR550HCT.ipynb
core_motif_analysis-ENCSR859BMR.ipynb		core_motif_analysis-ENCSR859BMR.ipynb
core_motifimpact_ENCSR550HCT.csv		core_motifimpact_ENCSR550HCT.csv
core_motifimpact_ENCSR550HCT.pdf		core_motifimpact_ENCSR550HCT.pdf
core_motifimpact_ENCSR550HCT_centered.pdf		core_motifimpact_ENCSR550HCT_centered.pdf
core_motifimpact_ENCSR859BMR.csv		core_motifimpact_ENCSR859BMR.csv
core_motifimpact_ENCSR859BMR.pdf		core_motifimpact_ENCSR859BMR.pdf
core_motifimpact_ENCSR859BMR_centered.pdf		core_motifimpact_ENCSR859BMR_centered.pdf
extended_motif_flank_analysis.tar		extended_motif_flank_analysis.tar
flank_analysis-ENCSR550HCT.ipynb		flank_analysis-ENCSR550HCT.ipynb
flank_analysis-ENCSR859BMR-extended.ipynb		flank_analysis-ENCSR859BMR-extended.ipynb
flank_analysis-ENCSR859BMR.ipynb		flank_analysis-ENCSR859BMR.ipynb
flank_analysis.ipynb		flank_analysis.ipynb
flank_base_impact_on_motif_ENCSR550HCT.csv		flank_base_impact_on_motif_ENCSR550HCT.csv
flank_base_impact_on_motif_ENCSR859BMR.csv		flank_base_impact_on_motif_ENCSR859BMR.csv
flank_base_impact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR.csv		flank_base_impact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR.csv
flank_base_impact_on_motif_GCCACGCCCAA_ENCSR859BMR.csv		flank_base_impact_on_motif_GCCACGCCCAA_ENCSR859BMR.csv
flank_base_impact_on_motif_GGCCACGCCCA_ENCSR859BMR.csv		flank_base_impact_on_motif_GGCCACGCCCA_ENCSR859BMR.csv
flank_base_impact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR.csv		flank_base_impact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR.csv
flank_base_impact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR.csv		flank_base_impact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR.csv
flank_baseimpact_ENCSR550HCT.pdf		flank_baseimpact_ENCSR550HCT.pdf
flank_baseimpact_ENCSR550HCT_centered.pdf		flank_baseimpact_ENCSR550HCT_centered.pdf
flank_baseimpact_ENCSR550HCT_notcentered.pdf		flank_baseimpact_ENCSR550HCT_notcentered.pdf
flank_baseimpact_ENCSR859BMR.pdf		flank_baseimpact_ENCSR859BMR.pdf
flank_baseimpact_ENCSR859BMR_centered.pdf		flank_baseimpact_ENCSR859BMR_centered.pdf
flank_baseimpact_ENCSR859BMR_notcentered.pdf		flank_baseimpact_ENCSR859BMR_notcentered.pdf
flank_baseimpact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR_centered.pdf		flank_baseimpact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR_centered.pdf
flank_baseimpact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR_notcentered.pdf		flank_baseimpact_on_motif_GAGCCACGCCCAAAG_ENCSR859BMR_notcentered.pdf
flank_baseimpact_on_motif_GCCACGCCCAA_ENCSR859BMR_centered.pdf		flank_baseimpact_on_motif_GCCACGCCCAA_ENCSR859BMR_centered.pdf
flank_baseimpact_on_motif_GCCACGCCCAA_ENCSR859BMR_notcentered.pdf		flank_baseimpact_on_motif_GCCACGCCCAA_ENCSR859BMR_notcentered.pdf
flank_baseimpact_on_motif_GGCCACGCCCA_ENCSR859BMR_centered.pdf		flank_baseimpact_on_motif_GGCCACGCCCA_ENCSR859BMR_centered.pdf
flank_baseimpact_on_motif_GGCCACGCCCA_ENCSR859BMR_notcentered.pdf		flank_baseimpact_on_motif_GGCCACGCCCA_ENCSR859BMR_notcentered.pdf
flank_baseimpact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR_centered.pdf		flank_baseimpact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR_centered.pdf
flank_baseimpact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR_notcentered.pdf		flank_baseimpact_on_motif_GTGAGCCACGCCCAAAGGT_ENCSR859BMR_notcentered.pdf
flank_baseimpact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR_centered.pdf		flank_baseimpact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR_centered.pdf
flank_baseimpact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR_notcentered.pdf		flank_baseimpact_on_motif_TAGTGAGCCACGCCCAAAGGTAA_ENCSR859BMR_notcentered.pdf
invitro_comparison-Copy1.ipynb		invitro_comparison-Copy1.ipynb
invitro_comparison.ipynb		invitro_comparison.ipynb
invitro_motif_mutant_predictions_ENCSR550HCT.csv		invitro_motif_mutant_predictions_ENCSR550HCT.csv
invitro_motif_mutant_predictions_ENCSR859BMR.csv		invitro_motif_mutant_predictions_ENCSR859BMR.csv
invitro_sequences_predictions_ENCSR550HCT.csv		invitro_sequences_predictions_ENCSR550HCT.csv
invitro_sequences_predictions_ENCSR859BMR.csv		invitro_sequences_predictions_ENCSR859BMR.csv
keras.stderr		keras.stderr
predict_notebook_newformat.ipynb		predict_notebook_newformat.ipynb
predictions.csv		predictions.csv
smf_sequences_prediction_ENCSR550HCT.csv		smf_sequences_prediction_ENCSR550HCT.csv
spacing_analysis_ENCSR550HCT_CCACGCCCA.ipynb		spacing_analysis_ENCSR550HCT_CCACGCCCA.ipynb
spacing_analysis_ENCSR859BMR_CCACGCCCA.ipynb		spacing_analysis_ENCSR859BMR_CCACGCCCA.ipynb
spacing_results_ENCSR859BMR_CCACGCCCA.csv		spacing_results_ENCSR859BMR_CCACGCCCA.csv
spacing_results_ENCSR859BMR_CCACGCCCA.pdf		spacing_results_ENCSR859BMR_CCACGCCCA.pdf
spacing_results_ENCSR859BMR_CCACGCCCA_avg_across_folds.pdf		spacing_results_ENCSR859BMR_CCACGCCCA_avg_across_folds.pdf
utils.py		utils.py

Folders and files

Latest commit

History

About

Uh oh!

Stars

Watchers

Forks

Releases

Packages 0

Uh oh!

Contributors

Uh oh!

Languages

Packages