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Name		Name	Last commit message	Last commit date
clipper		clipper
encode		encode
es_riboseq		es_riboseq
fox2		fox2
genentech		genentech
hnrnpa2b1		hnrnpa2b1
imp_project		imp_project
julia		julia
msi		msi
public_clip		public_clip
roche_riboseq		roche_riboseq
taf15		taf15
upf1		upf1
AS_STRUCTURE_gff_generator.ipynb		AS_STRUCTURE_gff_generator.ipynb
CLIPper Read Counting Error.ipynb		CLIPper Read Counting Error.ipynb
Chris_kk_splicing.ipynb		Chris_kk_splicing.ipynb
Dave_Uniport_parsing.ipynb		Dave_Uniport_parsing.ipynb
FMRP_Analysis_and_Targets.ipynb		FMRP_Analysis_and_Targets.ipynb
IMP_QC.ipynb		IMP_QC.ipynb
Leo_ucc_human_es_rnaseq.ipynb		Leo_ucc_human_es_rnaseq.ipynb
MSI2_Analysis.ipynb		MSI2_Analysis.ipynb
Region_Classification_Example.ipynb		Region_Classification_Example.ipynb
Steph_hnRNP Analysis.ipynb		Steph_hnRNP Analysis.ipynb
Untitled.ipynb		Untitled.ipynb
Untitled0.ipynb		Untitled0.ipynb
Untitled1.ipynb		Untitled1.ipynb
Untitled10.ipynb		Untitled10.ipynb
Untitled11.ipynb		Untitled11.ipynb
Untitled12.ipynb		Untitled12.ipynb
Untitled13.ipynb		Untitled13.ipynb
Untitled14.ipynb		Untitled14.ipynb
Untitled15.ipynb		Untitled15.ipynb
Untitled2.ipynb		Untitled2.ipynb
Untitled3.ipynb		Untitled3.ipynb
Untitled4.ipynb		Untitled4.ipynb
Untitled5.ipynb		Untitled5.ipynb
Untitled6.ipynb		Untitled6.ipynb
Untitled7.ipynb		Untitled7.ipynb
Untitled8.ipynb		Untitled8.ipynb
Untitled9.ipynb		Untitled9.ipynb
adar1_QC.ipynb		adar1_QC.ipynb
alg1_v4_qc.ipynb		alg1_v4_qc.ipynb
big_data_Peak Analysis.ipynb		big_data_Peak Analysis.ipynb
bradely_2013_review.ipynb		bradely_2013_review.ipynb
chen_ago.ipynb		chen_ago.ipynb
chen_read_collapser.ipynb		chen_read_collapser.ipynb
clim_analysis.ipynb		clim_analysis.ipynb
clim_bw_generation.ipynb		clim_bw_generation.ipynb
context_manager_example.ipynb		context_manager_example.ipynb
count_tags_feature_counts_comparison.ipynb		count_tags_feature_counts_comparison.ipynb
demux_comparison.ipynb		demux_comparison.ipynb
experiment_Negative Binomial Test.ipynb		experiment_Negative Binomial Test.ipynb
experiment_Pipeline QC.ipynb		experiment_Pipeline QC.ipynb
experiment_Region_finding_prototypes.ipynb		experiment_Region_finding_prototypes.ipynb
experiment_Space filling test.ipynb		experiment_Space filling test.ipynb
fast_closet.ipynb		fast_closet.ipynb
fastqc_aggergation_example.ipynb		fastqc_aggergation_example.ipynb
foo		foo
fox2_iclip_qc.ipynb		fox2_iclip_qc.ipynb
fxr_processing.ipynb		fxr_processing.ipynb
gencode_gene_annotation_generation.ipynb		gencode_gene_annotation_generation.ipynb
iclip_barcode_and_randomer_bias.ipynb		iclip_barcode_and_randomer_bias.ipynb
james_mirna_mapping.ipynb		james_mirna_mapping.ipynb
kasey ontology.ipynb		kasey ontology.ipynb
khmer_play.ipynb		khmer_play.ipynb
kmer_peak_counting.ipynb		kmer_peak_counting.ipynb
leo_fucci_es_rnaseq.ipynb		leo_fucci_es_rnaseq.ipynb
mecp2_rpkms.csv		mecp2_rpkms.csv
mn_loc.ipynb		mn_loc.ipynb
puppy_plot.ipynb		puppy_plot.ipynb
region_debugging.ipynb		region_debugging.ipynb
reid_riboseq_qc.ipynb		reid_riboseq_qc.ipynb
rnaseqc_gc_bias_generator.ipynb		rnaseqc_gc_bias_generator.ipynb
srvIPY.sh		srvIPY.sh
steve_exosome_qc.ipynb		steve_exosome_qc.ipynb
steven_demux.ipynb		steven_demux.ipynb
tomas_analysis.ipynb		tomas_analysis.ipynb
utr3_stats.ipynb		utr3_stats.ipynb
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