MANIFEST.in
README.rst
setup.py
RILseq/RNAup_tar_pred.py
RILseq/__init__.py
RILseq/dinuc_shuffle.py
RILseq/ecocyc_parser.py
RILseq/parse_ecocyc_TUs.py
RILseq.egg-info/PKG-INFO
RILseq.egg-info/SOURCES.txt
RILseq.egg-info/dependency_links.txt
RILseq.egg-info/not-zip-safe
RILseq.egg-info/requires.txt
RILseq.egg-info/top_level.txt
bin/RILseq_significant_regions.py
bin/count_chimeric_reads_per_gene.py
bin/generate_BED_file_of_endpoints.py
bin/generate_genes_gff.py
bin/generate_transcripts_gff.py
bin/get_sequences_for_meme.py
bin/map_chimeric_fragments.py
bin/map_single_fragments.py
bin/plot_circos_plot.py
bin/plot_regions_interactions.py
data/E_coli_K12/plot_interactions.sh
data/E_coli_K12/ver2/ACKNOWLEDGMENTS
data/E_coli_K12/ver2/EcoCyc_genes_190.gff
data/E_coli_K12/ver2/EcoCyc_transcripts_190.gff
data/E_coli_K12/ver2/REP_elements_table_from_SmartTrables.txt
data/E_coli_K12/ver2/curated_list_of_sRNA_mRNA_interactions.txt
data/E_coli_K12/ver2/draw_links.conf
data/E_coli_K12/ver2/ec_karyotype.conf
data/E_coli_K12/ver2/ecoli-COLI-K12.fsa
data/E_coli_K12/ver2/genes.dat
data/E_coli_K12/ver2/genome.fa
data/E_coli_K12/ver2/promoters.dat
data/E_coli_K12/ver2/rRNAs_highlight.txt
data/E_coli_K12/ver2/refseq_ver2_genes_chr.gff.gz
data/E_coli_K12/ver2/sRNAs_highlight_wide.txt
data/E_coli_K12/ver2/tRNAs_highlight_wide.txt
data/E_coli_K12/ver2/terminators.dat
data/E_coli_K12/ver3/ACKNOWLEDGMENTS
data/E_coli_K12/ver3/EcoCyc_genes_200.gff
data/E_coli_K12/ver3/EcoCyc_transcripts_200.gff
data/E_coli_K12/ver3/corrected_ecoli-COLI-K12.fsa
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa.amb
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa.ann
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa.bwt
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa.pac
data/E_coli_K12/ver3/ecoli-k12-MG1655-NC_000913-3.fa.sa
data/E_coli_K12/ver3/genes.dat
data/E_coli_K12/ver3/promoters.dat
data/E_coli_K12/ver3/refseq-ver3-from-feature.ptt.gz
data/E_coli_K12/ver3/terminators.dat