AUTHORS.rst
CONTRIBUTING.rst
HISTORY.rst
LICENSE
MANIFEST.in
README.rst
setup.cfg
setup.py
RNAlysis.egg-info/PKG-INFO
RNAlysis.egg-info/SOURCES.txt
RNAlysis.egg-info/dependency_links.txt
RNAlysis.egg-info/not-zip-safe
RNAlysis.egg-info/requires.txt
RNAlysis.egg-info/top_level.txt
docs/index.rst
docs/make.bat
docs/build/_images/bigtable_en.png
docs/build/_images/clustergram.png
docs/build/_images/go_en.png
docs/build/_images/pairplot.png
docs/build/_images/pca.png
docs/build/_images/rpm_vs_rpm.png
docs/build/_images/tissue_en.png
docs/build/_images/violin.png
docs/build/_static/file.png
docs/build/_static/minus.png
docs/build/_static/plus.png
docs/source/authors.rst
docs/source/bigtable_en.png
docs/source/clustergram.png
docs/source/conf.py
docs/source/contributing.rst
docs/source/go_en.png
docs/source/history.rst
docs/source/index.rst
docs/source/installation.rst
docs/source/pairplot.png
docs/source/pca.png
docs/source/phenotype_en.png
docs/source/readme.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.__init__.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.difference.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.enrich_big_table.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.go_enrichment.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.intersection.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.save_txt.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.symmetric_difference.rst
docs/source/rnalysis.enrichment.EnrichmentProcessing.union.rst
docs/source/rnalysis.enrichment.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.__init__.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.generate_target_dict.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.import_target.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.read_reference.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.rewrite_target.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.rst
docs/source/rnalysis.feature_name_to_wbgene.GeneNameTranslator.run.rst
docs/source/rnalysis.feature_name_to_wbgene.name_to_wbgene_folder.rst
docs/source/rnalysis.feature_name_to_wbgene.rst
docs/source/rnalysis.feature_name_to_wbgene.run_all.rst
docs/source/rnalysis.filtering.DESeqFilter.__init__.rst
docs/source/rnalysis.filtering.DESeqFilter.describe.rst
docs/source/rnalysis.filtering.DESeqFilter.difference.rst
docs/source/rnalysis.filtering.DESeqFilter.features_set.rst
docs/source/rnalysis.filtering.DESeqFilter.features_string.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_abs_fold_change.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_biotype.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_by_bigtable_group.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_fold_change_direction.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_percentile.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_significant.rst
docs/source/rnalysis.filtering.DESeqFilter.filter_top_n.rst
docs/source/rnalysis.filtering.DESeqFilter.head.rst
docs/source/rnalysis.filtering.DESeqFilter.intersection.rst
docs/source/rnalysis.filtering.DESeqFilter.rst
docs/source/rnalysis.filtering.DESeqFilter.save_csv.rst
docs/source/rnalysis.filtering.DESeqFilter.split_by_bigtable_group.rst
docs/source/rnalysis.filtering.DESeqFilter.split_by_percentile.rst
docs/source/rnalysis.filtering.DESeqFilter.split_fold_change_direction.rst
docs/source/rnalysis.filtering.DESeqFilter.symmetric_difference.rst
docs/source/rnalysis.filtering.DESeqFilter.union.rst
docs/source/rnalysis.filtering.HTCountFilter.__init__.rst
docs/source/rnalysis.filtering.HTCountFilter.clustergram.rst
docs/source/rnalysis.filtering.HTCountFilter.describe.rst
docs/source/rnalysis.filtering.HTCountFilter.features_set.rst
docs/source/rnalysis.filtering.HTCountFilter.features_string.rst
docs/source/rnalysis.filtering.HTCountFilter.filter_biotype.rst
docs/source/rnalysis.filtering.HTCountFilter.filter_by_bigtable_group.rst
docs/source/rnalysis.filtering.HTCountFilter.filter_low_reads.rst
docs/source/rnalysis.filtering.HTCountFilter.filter_percentile.rst
docs/source/rnalysis.filtering.HTCountFilter.from_folder.rst
docs/source/rnalysis.filtering.HTCountFilter.head.rst
docs/source/rnalysis.filtering.HTCountFilter.norm_reads_to_rpm.rst
docs/source/rnalysis.filtering.HTCountFilter.norm_reads_with_size_factor.rst
docs/source/rnalysis.filtering.HTCountFilter.pairplot.rst
docs/source/rnalysis.filtering.HTCountFilter.pca.rst
docs/source/rnalysis.filtering.HTCountFilter.rst
docs/source/rnalysis.filtering.HTCountFilter.save_csv.rst
docs/source/rnalysis.filtering.HTCountFilter.scatter_sample_vs_sample.rst
docs/source/rnalysis.filtering.HTCountFilter.split_by_bigtable_group.rst
docs/source/rnalysis.filtering.HTCountFilter.split_by_percentile.rst
docs/source/rnalysis.filtering.HTCountFilter.split_by_reads.rst
docs/source/rnalysis.filtering.HTCountFilter.violin_plot.rst
docs/source/rnalysis.filtering.rst
docs/source/rnalysis.general.check_is_df.rst
docs/source/rnalysis.general.filter_low_rpm.rst
docs/source/rnalysis.general.is_reference_table_defined.rst
docs/source/rnalysis.general.load_csv.rst
docs/source/rnalysis.general.norm_reads_to_rpm.rst
docs/source/rnalysis.general.normalize_file.rst
docs/source/rnalysis.general.parse_gene_name_string.rst
docs/source/rnalysis.general.parse_sequence_name_string.rst
docs/source/rnalysis.general.parse_wbgene_string.rst
docs/source/rnalysis.general.read_reference_table_path.rst
docs/source/rnalysis.general.remove_unindexed_rows.rst
docs/source/rnalysis.general.rst
docs/source/rnalysis.general.save_to_csv.rst
docs/source/rnalysis.general.set_reference_table_path.rst
docs/source/rnalysis.rst
docs/source/rpm_vs_rpm.png
docs/source/tissue_en.png
docs/source/usage.rst
docs/source/violin.png
rnalysis/__init__.py
rnalysis/enrichment.py
rnalysis/feature_name_to_wbgene.py
rnalysis/filtering.py
rnalysis/gene_names_and_biotype.csv
rnalysis/general.py
tests/__init__.py
tests/all_expr.csv
tests/all_expr_above60_rpm.csv
tests/all_expr_below60_rpm.csv
tests/all_expr_biotype.csv
tests/all_expr_biotype_no_piRNA.csv
tests/all_expr_biotype_piRNA.csv
tests/all_expr_biotype_piRNA_protein_coding.csv
tests/all_expr_biotype_piRNA_protein_coding_opposite.csv
tests/all_expr_biotype_protein_coding.csv
tests/all_expr_filter_by_bigtable.csv
tests/all_expr_filter_by_bigtable_intersect_truth.csv
tests/all_expr_filter_by_bigtable_union_truth.csv
tests/all_expr_low_rpm.csv
tests/all_expr_low_rpm_truth.csv
tests/all_expr_missing_rows.csv
tests/all_expr_missing_rows_deleted.csv
tests/all_feature.csv
tests/big_table_for_tests.csv
tests/size_factors.csv
tests/test_deseq.csv
tests/test_deseq_biotype.csv
tests/test_deseq_biotype_piRNA.csv
tests/test_deseq_biotype_piRNA_opposite.csv
tests/test_deseq_biotype_piRNA_protein_coding.csv
tests/test_deseq_biotype_piRNA_protein_coding_opposite.csv
tests/test_deseq_biotype_protein_coding.csv
tests/test_deseq_fc.csv
tests/test_deseq_fc_4_truth.csv
tests/test_deseq_fc_neg_truth.csv
tests/test_deseq_fc_pos_truth.csv
tests/test_deseq_no_nans.csv
tests/test_deseq_not_sig_truth.csv
tests/test_deseq_percentile.csv
tests/test_deseq_percentile_0.25.csv
tests/test_deseq_percentile_0.75.csv
tests/test_deseq_set_ops_1.csv
tests/test_deseq_set_ops_2.csv
tests/test_deseq_sig.csv
tests/test_deseq_sig_truth.csv
tests/test_deseq_top10.csv
tests/test_enrichment.py
tests/test_feature_name_to_wbgene.py
tests/test_filtering.py
tests/test_general.py
tests/test_load_csv.csv
tests/test_norm_reads_rpm.csv
tests/test_norm_size_factor.csv