CHANGELOG.rst
LICENSE
MANIFEST.in
README.rst
setup.py
docs/Makefile
docs/make.bat
docs/rtd_requirements.txt
docs/run_sphinx-apidoc.sh
docs/source/conf.py
docs/source/index.rst
docs/source/license.rst
docs/source/overview.rst
docs/source/scripts.rst
docs/source/_static/notebooks/Tests_01.ipynb
docs/source/api/basic.rst
docs/source/api/enrichment.rst
docs/source/api/expression.rst
docs/source/api/expression_visualize.rst
docs/source/api/index.rst
docs/source/api/misc.rst
docs/source/api/ontology.rst
docs/source/notebooks/Scripts.ipynb
genometools/__init__.py
genometools/cli.py
genometools/gtf.py
genometools.egg-info/PKG-INFO
genometools.egg-info/SOURCES.txt
genometools.egg-info/dependency_links.txt
genometools.egg-info/entry_points.txt
genometools.egg-info/requires.txt
genometools.egg-info/top_level.txt
genometools/basic/__init__.py
genometools/basic/gene_set.py
genometools/basic/gene_set_collection.py
genometools/basic/species.py
genometools/data/RdBu_r_colormap.tsv
genometools/ebi/__init__.py
genometools/ebi/uniprot_goa.py
genometools/enrichment/__init__.py
genometools/enrichment/analysis.py
genometools/enrichment/result.py
genometools/ensembl/__init__.py
genometools/ensembl/annotations.py
genometools/ensembl/cdna.py
genometools/ensembl/dna.py
genometools/ensembl/filter_fasta.py
genometools/ensembl/species.py
genometools/ensembl/util.py
genometools/ensembl/cli/__init__.py
genometools/ensembl/cli/extract_protein_coding_exon_annotations.py
genometools/ensembl/cli/extract_protein_coding_gene_ids.py
genometools/ensembl/cli/extract_protein_coding_genes.py
genometools/ensembl/cli/util.py
genometools/expression/__init__.py
genometools/expression/cluster.py
genometools/expression/convert_entrez2gene.py
genometools/expression/filter.py
genometools/expression/gene.py
genometools/expression/genome.py
genometools/expression/matrix.py
genometools/expression/normalize.py
genometools/expression/profile.py
genometools/expression/visualize/__init__.py
genometools/expression/visualize/annotation.py
genometools/expression/visualize/corr_heatmap.py
genometools/expression/visualize/heatmap.py
genometools/expression/visualize/util.py
genometools/gcloud/__init__.py
genometools/gcloud/auth.py
genometools/gcloud/config.py
genometools/gcloud/operations.py
genometools/gcloud/service_account.py
genometools/gcloud/storage.py
genometools/gcloud/compute/__init__.py
genometools/gcloud/compute/instance.py
genometools/gcloud/compute/instance_config.py
genometools/gcloud/compute/metadata.py
genometools/gcloud/compute/network.py
genometools/gcloud/compute/test.py
genometools/gcloud/tasks/__init__.py
genometools/gcloud/tasks/fastq.py
genometools/gcloud/tasks/star.py
genometools/gcloud/tasks/util.py
genometools/gdc/__init__.py
genometools/gdc/download.py
genometools/gdc/tcga.py
genometools/misc/__init__.py
genometools/misc/download.py
genometools/misc/functions.py
genometools/misc/log.py
genometools/ncbi/__init__.py
genometools/ncbi/extract_entrez2gene.py
genometools/ncbi/taxonomy.py
genometools/ncbi/geo/__init__.py
genometools/ncbi/geo/functions.py
genometools/ncbi/geo/generate_sample_sheet.py
genometools/ncbi/sra/__init__.py
genometools/ncbi/sra/find_experiment_runs.py
genometools/ncbi/sra/util.py
genometools/ontology/__init__.py
genometools/ontology/annotation.py
genometools/ontology/gaf.py
genometools/ontology/ontology.py
genometools/ontology/term.py
genometools/ontology/util.py
genometools/rnaseq/__init__.py
genometools/rnaseq/stringtie_gene_level_expression.py
genometools/seq/__init__.py
genometools/seq/fasta.py
genometools/seq/sequence.py
genometools/seq/trim_fastq.py
tests/basic/conftest.py
tests/basic/test_geneset.py
tests/basic/test_genesetcoll.py
tests/enrichment/conftest.py
tests/enrichment/test_analysis.py
tests/enrichment/test_result.py
tests/ensembl/conftest.py
tests/ensembl/test_ensembl_downloads.py
tests/ensembl/test_ensembl_gene_annotations.py
tests/expression/conftest.py
tests/expression/test_cluster.py
tests/expression/test_exp_gene.py
tests/expression/test_filter.py
tests/expression/test_genome.py
tests/expression/test_matrix.py
tests/expression/test_normalize.py
tests/expression/test_profile.py
tests/expression/visualize/test_heatmap.py
tests/misc/conftest.py
tests/misc/test_misc_functions.py
tests/ontology/conftest.py
tests/ontology/test_gene_ontology.py
tests/ontology/test_go_annotation.py
tests/ontology/test_go_term.py