CHANGELOG
LICENSE
MANIFEST.in
README.md
requirements-dev.txt
requirements.txt
setup.cfg
setup.py
clodius/__init__.py
clodius/array.py
clodius/chromosomes.py
clodius/db_tiles.py
clodius/describe_dataset.py
clodius/fpark.py
clodius/hdf_tiles.py
clodius/higlass_getter.py
clodius/multivec.py
clodius/save_tiles.py
clodius.egg-info/PKG-INFO
clodius.egg-info/SOURCES.txt
clodius.egg-info/dependency_links.txt
clodius.egg-info/entry_points.txt
clodius.egg-info/requires.txt
clodius.egg-info/top_level.txt
clodius/cli/__init__.py
clodius/cli/aggregate.py
clodius/cli/convert.py
clodius/cli/utils.py
clodius/tiles/__init__.py
clodius/tiles/bam.py
clodius/tiles/bed2ddb.py
clodius/tiles/bedarcsdb.py
clodius/tiles/beddb.py
clodius/tiles/bedfile.py
clodius/tiles/bigbed.py
clodius/tiles/bigwig.py
clodius/tiles/chromsizes.py
clodius/tiles/cooler.py
clodius/tiles/density.py
clodius/tiles/files.py
clodius/tiles/format.py
clodius/tiles/geo.py
clodius/tiles/hitile.py
clodius/tiles/imtiles.py
clodius/tiles/mrmatrix.py
clodius/tiles/multivec.py
clodius/tiles/nplabels.py
clodius/tiles/npmatrix.py
clodius/tiles/npvector.py
clodius/tiles/points.py
clodius/tiles/time_interval.py
clodius/tiles/utils.py
docs/genomic/bed.rst
docs/genomic/bedgraph.rst
docs/genomic/bedpe.rst
docs/genomic/bigbed.rst
docs/genomic/bigwig.rst
docs/genomic/chromosome-sizes.rst
docs/genomic/cooler.rst
docs/genomic/gene-annotation.rst
docs/genomic/hitile.rst
docs/genomic/multivec.rst
docs/raster/tsv.rst
scripts/tsv_to_mrmatrix.py
test/__init__.py
test/bam_test.py
test/bedfile_test.py
test/bedpe_test.py
test/cli_test.py
test/fpark_test.py
test/mrmatrix_test.py
test/multivec_test.py
test/nplabels_test.py
test/tile_2d_bedfile_test.py
test/tsv_to_mrmatrix_test.py
test/utils.py
test/sample_data/25435_PM15-000877_SM-7QK6O.seg
test/sample_data/3_header_100_row_infos.txt
test/sample_data/3_header_100_testfile.bed.gz
test/sample_data/Dixon2012-J1-NcoI-R1-filtered.1000kb.cool
test/sample_data/Dixon2012-J1-NcoI-R1-filtered.1000kb.multires.cool
test/sample_data/E116-DNase.fc.signal.bigwig.bedGraph.genome.100000
test/sample_data/E116-DNase.fc.signal.bigwig.bedGraph.genome.20212
test/sample_data/E116-DNase.fc.signal.bigwig.bedGraph.genome.225
test/sample_data/GSM2533843_ES_rep1.txt
test/sample_data/Rao_RepA_GM12878_Arrowhead.txt
test/sample_data/arrowhead_domains_short.txt
test/sample_data/arrowhead_domains_short.txt.multires.db
test/sample_data/b37_100000.chromSizes
test/sample_data/cna.txt
test/sample_data/cnv.bed
test/sample_data/cnv.hibed
test/sample_data/cnvs_hw.tsv
test/sample_data/cnvs_hw.tsv.gz
test/sample_data/dm3_values.tsv
test/sample_data/eigs.hitile
test/sample_data/eigs.tsv
test/sample_data/exon_unions_mm10.bed
test/sample_data/exons.bed
test/sample_data/fullMatrix.tsv
test/sample_data/galGal6.bed
test/sample_data/galGal6.bed.multires.db
test/sample_data/galGal6.chrom.sizes
test/sample_data/geneAnnotationsExonsUnions.hg19.short.bed
test/sample_data/geneAnnotationsExonsUnions.short.bed
test/sample_data/geneAnnotationsExonsUnions.short.multires.bed
test/sample_data/geneAnnotationsExonsUnions1.short.bed
test/sample_data/geneAnnotationsExonsUnions2.short.bed
test/sample_data/gene_annotations.short.db
test/sample_data/hiccups_loops_short.txt
test/sample_data/hiccups_loops_short.txt.multires.db
test/sample_data/isidro.bed
test/sample_data/isidro.bedpe
test/sample_data/overlapping_segments.seg
test/sample_data/refGeneColumns.tsv
test/sample_data/sample.multival.bed
test/sample_data/sample.multival.chrom.sizes
test/sample_data/sample2.multival.bed
test/sample_data/sample2.multival.chrom.sizes
test/sample_data/sample_gwas.bed
test/sample_data/sample_gwas.multires.mv5
test/sample_data/simpleMatrix.tsv
test/sample_data/small.bedGraph
test/sample_data/smallBedGraph.tsv
test/sample_data/smallFullMatrix.tsv
test/sample_data/smallRefGeneCounts.tsv
test/sample_data/states_format_input_testfile.bed.gz
test/sample_data/states_format_output_test_file.multires.mv5
test/sample_data/states_format_test_row_infos.txt
test/sample_data/states_format_test_row_infos_v2.txt
test/sample_data/test.bw
test/sample_data/test.mr.chromSizes
test/sample_data/test.tile_generation.bg
test/sample_data/test.tile_generation.bw
test/sample_data/test.tile_generation.hdf5
test/sample_data/test1.bw
test/sample_data/test1.multires.bw
test/sample_data/test1.tile_generation.hdf5
test/sample_data/test3chroms_values.tsv
test/sample_data/test_cnvs_assembly
test/sample_data/test_float_importance.bed
test/sample_data/test_non_standard_chrom.bed
test/sample_data/piecewise-file/part-00000
test/sample_data/piecewise-file/part-00001
test/tiles/__init__.py
test/tiles/bed2ddb_test.py
test/tiles/bedarcsdb.py
test/tiles/beddb_test.py
test/tiles/bigbed_test.py
test/tiles/bigwig_test.py
test/tiles/cooler_test.py
test/tiles/density_test.py
test/tiles/files_test.py
test/tiles/hitile_test.py
test/tiles/multivec_test.py
test/tiles/npmatrix_test.py
test/tiles/npvector_test.py
test/tiles/time_interval_test.py