GitHub - VorontsovIE/motif_fragility: Estimates motif (specified by PFM) fragility against certain mutational signature

VorontsovIE / motif_fragility Public

Estimates motif (specified by PFM) fragility against certain mutational signature

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Name		Name	Last commit message	Last commit date
Latest commit History 40 Commits
genomic_contexts		genomic_contexts
lib		lib
mutational_signatures		mutational_signatures
test_data		test_data
COSMIC_v3.4_SBS_GRCh38.tsv		COSMIC_v3.4_SBS_GRCh38.tsv
Gemfile		Gemfile
Gemfile.lock		Gemfile.lock
TOPMed_10kb_spectra.tsv		TOPMed_10kb_spectra.tsv
all_motifs_hocomoco_9.txt		all_motifs_hocomoco_9.txt
all_motifs_hocomoco_human_10.txt		all_motifs_hocomoco_human_10.txt
ape-3.0.6.jar		ape-3.0.6.jar
ape.jar		ape.jar
attractiveness.rb		attractiveness.rb
basic_stats.rb		basic_stats.rb
calc_context_distribution.sh		calc_context_distribution.sh
check_motif_different_cancers.sh		check_motif_different_cancers.sh
estimate_mutational_context.rb		estimate_mutational_context.rb
extract_mutations.rb		extract_mutations.rb
generate_snvs.rb		generate_snvs.rb
genome_contexts.rb		genome_contexts.rb
get_normalization_params.rb		get_normalization_params.rb
get_pwm.rb		get_pwm.rb
hocomoco11_human_exposure.txt		hocomoco11_human_exposure.txt
mutate_motif.rb		mutate_motif.rb
process.sh		process.sh
short_description.pdf		short_description.pdf
short_description.tex		short_description.tex
tmp.pdf		tmp.pdf
tmp.tex		tmp.tex
whitepaper.pdf		whitepaper.pdf
whitepaper.tex		whitepaper.tex
whitepaper_rewrite.pdf		whitepaper_rewrite.pdf
whitepaper_rewrite.tex		whitepaper_rewrite.tex
whitepaper_rewrite_old.pdf		whitepaper_rewrite_old.pdf