govinda-kamath/clustering_on_transcript_compatibility_counts

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	Zeisels_data
	Clean_reads.py
	SRR_in_3005.txt
	UMI_counting.py
	UMI_counting_100.py
	Zeisel_Analysis.ipynb
	Zeisel_TCC_UMI_pairwise_JS_subsample100.dat
	Zeisel_TCC_pairwise_JS_distance_subsample100_full.dat
	Zeisel_wrapper.py
	get_UMI_count_matrices.py
	get_UMI_for_sampled_reads.py
	get_UMI_matrices.py
	get_files.py
	get_hisat_matrices.py
	get_kallisto_matrices.py
	get_pairwise_distances.py
	get_pairwise_distances_l1.py
	get_pseudoalignments.py
	get_sampled_read_ids.py
	get_tcc_dist.py
	pairwise_distances_timing.ipynb
	process_SRA.py
	process_hisat_pbams.py
	process_hisat_sam.py
	process_pbam.py
	process_xprs.py
	run_bowtie.py
	run_express.py
	run_hisat.py
	run_kallisto_and_get_pbam.py
	sample_reads.py
	subsample_bams.py
	t3i_to_expression_matrix.py
	time_pairwise_distances.sh
	transcript_length.txt
	transcript_to_gene_map.txt