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Copy pathsetup.cfg
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[metadata]
name = circtools
description = circtools - a circular RNA toolbox
version = 2.0.5.post2
long_description = file: pypi.rst
long_description_content_type = text/x-rst
url = https://github.com/jakobilab/circtools
author = Tobias Jakobi
author_email = tjakobi@arizona.edu
license= GNU General Public License (GPL)
license_files = LICENSE
classifiers =
Development Status :: 4 - Beta
Intended Audience :: Science/Research
Topic :: Scientific/Engineering :: Bio-Informatics
Programming Language :: Python :: 3.8
Programming Language :: Python :: 3.9
Programming Language :: Python :: 3.10
Programming Language :: Python :: 3.11
Programming Language :: Python :: 3.12
Programming Language :: Python :: 3.13
keywords=
circRNA
circular RNA bioinformatics
project_urls =
Bug Reports = https://github.com/jakobilab/circtools/issues
Jakobi Lab = https://jakobilab.org
Source = https://github.com/jakobilab/circtools
Documentation = https://docs.circ.tools
[options]
zip_safe = False
platforms = Linux, Darwin
include_package_data = True
python_requires = >=3.8
install_requires = pysam>=0.16.0.1
Cython
pybedtools>=0.7.10
biopython>=1.71
scipy>=0.19.0
reportlab>=3.3.0
pandas>=0.25.0
statsmodels
numpy>=1.14.5, <2.0.0
HTSeq>=2.0.0
pathos>=0.3.0
requests>=2.32.3
tqdm>=4.67.1
PyYAML>=6.0.2
matplotlib>=3.0
primer3-py>=2.2.0
openpyxl
seaborn
nanofilt
numdifftools
certifi
jinja2
scikit-learn
packages = find:
[options.entry_points]
console_scripts =
circtools_circtest_wrapper = circtools.circtest.circtools_circtest_wrapper:main
circtools_enrich_visualization = circtools.enrichment.circtools_enrich_visualization:main
circtools_exon_wrapper = circtools.contrib.exon.exon_call:main
circtools_primex_wrapper = circtools.primex.circtools_primex_wrapper:main
circtools_quickcheck_wrapper = circtools.quickcheck.circtools_quickcheck_wrapper:main
circtools_reconstruct_visualization = circtools.reconstruct.circtools_reconstruct_visualization:main
circtools_html_formatter = circtools.scripts.circtools_html_formatter:main
circtools_reconstruct_coverage_graph = circtools.reconstruct.circtools_reconstruct_coverage_graph:main
circtools_reconstruct_summarized_coverage_profiles = circtools.reconstruct.circtools_reconstruct_summarized_coverage_profiles:main
create_igv_script = circtools.scripts.create_igv_script:main
detect_new_exons_from_fuchs_data = circtools.scripts.detect_new_exons_from_fuchs_data:main
create_igv_script_from_position_list = circtools.scripts.create_igv_script_from_position_list:main
create_igv_script_from_gene_names = circtools.scripts.create_igv_script_from_gene_names:main
guided_denovo_circle_structure = circtools.reconstruct.guided_denovo_circle_structure_parallel:main
wonderdump = circtools.scripts.bash_runner:wonderdump
blat_nanopore = circtools.scripts.bash_runner:blat_nanopore
novel_exons_and_alternative_usage = circtools.scripts.bash_runner:novel_exons_and_alternative_usage
circtools = circtools.circtools:main
blat_output_processing = circtools.nanopore.blat_output_processing_v3:main
combine_annot_segments = circtools.nanopore.combine_annot_segments:main
flank2_combine = circtools.nanopore.flank2_combine:main
make_circRNAs_from_annot = circtools.nanopore.make_circRNAs_from_annot.txt:main
psl2bed12.py = circtools.nanopore.psl2bed12:main