msreport 0.0.32__tar.gz → 0.0.33__tar.gz
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- msreport-0.0.33/.gitignore +125 -0
- msreport-0.0.33/CHANGELOG.md +706 -0
- {msreport-0.0.32 → msreport-0.0.33}/PKG-INFO +153 -154
- {msreport-0.0.32 → msreport-0.0.33}/README.md +1 -1
- msreport-0.0.33/msreport/__init__.py +20 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/analyze.py +414 -39
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/distribution.py +3 -3
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/multivariate.py +0 -1
- msreport-0.0.33/msreport/plot/style_sheets/_all_relevant_styles.md +594 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/qtable.py +3 -2
- {msreport-0.0.32 → msreport-0.0.33}/msreport/reader.py +9 -1
- {msreport-0.0.32 → msreport-0.0.33}/msreport/rinterface/limma.py +68 -3
- {msreport-0.0.32 → msreport-0.0.33}/msreport/rinterface/rscripts/limma.R +79 -18
- {msreport-0.0.32 → msreport-0.0.33}/pyproject.toml +28 -31
- msreport-0.0.33/tests/_OLD_testdata/.gitignore +1 -0
- msreport-0.0.33/tests/_OLD_testdata/common/table.txt +6 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleA_1/ion.tsv +1022 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleA_1/peptide.tsv +1021 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleA_1/protein.tsv +403 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleA_1/psm.tsv +551 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleB_1/ion.tsv +1083 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleB_1/peptide.tsv +1083 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleB_1/protein.tsv +562 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/SampleB_1/psm.tsv +918 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/combined_ion.tsv +1121 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/combined_modified_peptide.tsv +1121 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/combined_peptide.tsv +1120 -0
- msreport-0.0.33/tests/_OLD_testdata/fragpipe/combined_protein.tsv +679 -0
- msreport-0.0.33/tests/_OLD_testdata/maxquant/evidence.txt +1523 -0
- msreport-0.0.33/tests/_OLD_testdata/maxquant/peptides.txt +1143 -0
- msreport-0.0.33/tests/_OLD_testdata/maxquant/proteinGroups.txt +667 -0
- msreport-0.0.33/tests/_OLD_testdata/spectronaut/table_spectronaut_style_tag.txt +6 -0
- msreport-0.0.33/tests/test_aggregate/test_condense.py +419 -0
- msreport-0.0.33/tests/test_aggregate/test_pivot.py +168 -0
- msreport-0.0.33/tests/test_aggregate/test_summarize.py +188 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_analyze.py +55 -4
- msreport-0.0.33/tests/test_normalize/test_categorical_normalizer.py +144 -0
- msreport-0.0.33/tests/test_normalize/test_normalize.py +241 -0
- msreport-0.0.33/tests/test_reader/test_fragpipe.py +386 -0
- msreport-0.0.33/tests/test_reader/test_maxquant.py +106 -0
- msreport-0.0.33/tests/test_reader/test_reader_functions.py +557 -0
- msreport-0.0.33/tests/test_reader/test_resultreader.py +128 -0
- msreport-0.0.33/tests/test_reader/test_spectronaut.py +24 -0
- msreport-0.0.33/tests/testdata/common/table.txt +6 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleA_1/ion.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleA_1/peptide.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleA_1/protein.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleA_1/psm.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleB_1/ion.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleB_1/peptide.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleB_1/protein.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/SampleB_1/psm.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/combined_ion.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/combined_modified_peptide.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/combined_peptide.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/combined_protein.tsv +21 -0
- msreport-0.0.33/tests/testdata/fragpipe/fragpipe-files.fp-manifest +2 -0
- msreport-0.0.33/tests/testdata/maxquant/evidence.txt +21 -0
- msreport-0.0.33/tests/testdata/maxquant/peptides.txt +21 -0
- msreport-0.0.33/tests/testdata/maxquant/proteinGroups.txt +21 -0
- msreport-0.0.33/tests/testdata/spectronaut/ConditionSetup.tsv +3 -0
- msreport-0.0.33/tests/testdata/spectronaut/table_spectronaut_style_tag.txt +6 -0
- msreport-0.0.32/msreport/__init__.py +0 -11
- msreport-0.0.32/msreport.egg-info/PKG-INFO +0 -154
- msreport-0.0.32/msreport.egg-info/SOURCES.txt +0 -51
- msreport-0.0.32/msreport.egg-info/dependency_links.txt +0 -1
- msreport-0.0.32/msreport.egg-info/requires.txt +0 -30
- msreport-0.0.32/msreport.egg-info/top_level.txt +0 -1
- msreport-0.0.32/setup.cfg +0 -4
- msreport-0.0.32/setup.py +0 -3
- {msreport-0.0.32 → msreport-0.0.33}/LICENSE.txt +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/aggregate/__init__.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/aggregate/condense.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/aggregate/pivot.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/aggregate/summarize.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/errors.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/export.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/fasta.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/helper/__init__.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/helper/calc.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/helper/maxlfq.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/helper/table.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/helper/temp.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/impute.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/isobar.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/normalize.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/peptidoform.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/__init__.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/_partial_plots.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/comparison.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/quality.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/style.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/style_sheets/msreport-notebook.mplstyle +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/plot/style_sheets/seaborn-whitegrid.mplstyle +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/rinterface/__init__.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/msreport/rinterface/rinstaller.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_export.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_helper.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_impute.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_isobar.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_maxlfq.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_peptidoform.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_plot.py +0 -0
- {msreport-0.0.32 → msreport-0.0.33}/tests/test_qtable.py +0 -0
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