bionty.lookup

class bionty.lookup

Bases: object

Look up a list of values via tab completion.

Attributes

PIPELINES = {'airrflow_v1_0_0': {'id': 'lJIDZCRmk0lK', 'name': 'airrflow v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '1.0.0'}, 'airrflow_v1_1_0': {'id': 'elHe4iWifFEW', 'name': 'airrflow v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '1.1.0'}, 'airrflow_v1_2_0': {'id': '40sdYrflgWH8', 'name': 'airrflow v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '1.2.0'}, 'airrflow_v2_0_0': {'id': 'uO1E7k8z56z0', 'name': 'airrflow v2.0.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '2.0.0'}, 'airrflow_v2_1_0': {'id': 'eG9FctlYC1pE', 'name': 'airrflow v2.1.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '2.1.0'}, 'airrflow_v2_2_0': {'id': '0JLe7N5dJi2c', 'name': 'airrflow v2.2.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '2.2.0'}, 'airrflow_v2_3_0': {'id': 'ba2XoeigYpeL', 'name': 'airrflow v2.3.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '2.3.0'}, 'airrflow_v2_4_0': {'id': 'K9GxqTAsEodf', 'name': 'airrflow v2.4.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '2.4.0'}, 'airrflow_v3_0': {'id': 'fMCf19o5YS0K', 'name': 'airrflow v3.0', 'reference': 'https://api.github.com/repos/nf-core/airrflow', 'versions': '3.0'}, 'ampliseq_v1_0_0': {'id': 'LZCVrJJyyVS0', 'name': 'ampliseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.0.0'}, 'ampliseq_v1_1_0': {'id': '58f0aOftmfvQ', 'name': 'ampliseq v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.1.0'}, 'ampliseq_v1_1_1': {'id': 'nXS6fTc7xmCJ', 'name': 'ampliseq v1.1.1', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.1.1'}, 'ampliseq_v1_1_2': {'id': 'biERHne0wCzw', 'name': 'ampliseq v1.1.2', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.1.2'}, 'ampliseq_v1_1_3': {'id': '7rfQVvEvqPIp', 'name': 'ampliseq v1.1.3', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.1.3'}, 'ampliseq_v1_2_0': {'id': 'kKwLNtzDdnzL', 'name': 'ampliseq v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '1.2.0'}, 'ampliseq_v2_0_0': {'id': '0x7IjjIxeJVY', 'name': 'ampliseq v2.0.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.0.0'}, 'ampliseq_v2_1_0': {'id': 'JnFErxGeGZNB', 'name': 'ampliseq v2.1.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.1.0'}, 'ampliseq_v2_1_1': {'id': '0gKQ66tcOjMi', 'name': 'ampliseq v2.1.1', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.1.1'}, 'ampliseq_v2_2_0': {'id': 'aupqQMcWaK0X', 'name': 'ampliseq v2.2.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.2.0'}, 'ampliseq_v2_3_0': {'id': 'cnSK0j3IowyZ', 'name': 'ampliseq v2.3.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.3.0'}, 'ampliseq_v2_3_1': {'id': 'Rgi0BPnJwOC5', 'name': 'ampliseq v2.3.1', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.3.1'}, 'ampliseq_v2_3_2': {'id': 'R1Jb7AtJCxPs', 'name': 'ampliseq v2.3.2', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.3.2'}, 'ampliseq_v2_4_0': {'id': 'jTefh2p0aM35', 'name': 'ampliseq v2.4.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.4.0'}, 'ampliseq_v2_4_1': {'id': 'XYp59E02Km30', 'name': 'ampliseq v2.4.1', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.4.1'}, 'ampliseq_v2_5_0': {'id': '4I6luBqCrRLN', 'name': 'ampliseq v2.5.0', 'reference': 'https://api.github.com/repos/nf-core/ampliseq', 'versions': '2.5.0'}, 'atacseq_v1_0_0': {'id': 'e10FWFt9U1DR', 'name': 'atacseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '1.0.0'}, 'atacseq_v1_1_0': {'id': 'YLeZXKE1p0u6', 'name': 'atacseq v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '1.1.0'}, 'atacseq_v1_2_0': {'id': '0QNcX7FH0cQF', 'name': 'atacseq v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '1.2.0'}, 'atacseq_v1_2_1': {'id': 'v0vhZb79Ex9C', 'name': 'atacseq v1.2.1', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '1.2.1'}, 'atacseq_v1_2_2': {'id': 'bPXv7he0vA5m', 'name': 'atacseq v1.2.2', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '1.2.2'}, 'atacseq_v2_0': {'id': 'QCdabNCtKy04', 'name': 'atacseq v2.0', 'reference': 'https://api.github.com/repos/nf-core/atacseq', 'versions': '2.0'}, 'bacass_v1_0_0': {'id': 'VHaPVzNQ08ry', 'name': 'bacass v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/bacass', 'versions': '1.0.0'}, 'bacass_v1_1_0': {'id': 'HA1uvPU0rjyb', 'name': 'bacass v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/bacass', 'versions': '1.1.0'}, 'bacass_v1_1_1': {'id': 'KO9NIKrwBt7K', 'name': 'bacass v1.1.1', 'reference': 'https://api.github.com/repos/nf-core/bacass', 'versions': '1.1.1'}, 'bacass_v2_0_0': {'id': 'Ow0FYVF0iwpJ', 'name': 'bacass v2.0.0', 'reference': 'https://api.github.com/repos/nf-core/bacass', 'versions': '2.0.0'}, 'bactmap_v0_9_1': {'id': '2iT0WAngv2z2', 'name': 'bactmap v0.9.1', 'reference': 'https://api.github.com/repos/nf-core/bactmap', 'versions': '0.9.1'}, 'bactmap_v1_0_0': {'id': 'wf0X3YY1W00Y', 'name': 'bactmap v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/bactmap', 'versions': '1.0.0'}, 'bactmap_vv0_9': {'id': 'IPJXiQnC45j0', 'name': 'bactmap vv0.9', 'reference': 'https://api.github.com/repos/nf-core/bactmap', 'versions': 'v0.9'}, 'bamtofastq_v1_0_0': {'id': 'BjLw5IKgOrZs', 'name': 'bamtofastq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/bamtofastq', 'versions': '1.0.0'}, 'bamtofastq_v1_1_0': {'id': 'gaUL0eAbneQT', 'name': 'bamtofastq v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/bamtofastq', 'versions': '1.1.0'}, 'bamtofastq_v1_2_0': {'id': 'UPgVQ84NwGri', 'name': 'bamtofastq v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/bamtofastq', 'versions': '1.2.0'}, 'cageseq_v1_0_0': {'id': 'OZPgHONT0BuP', 'name': 'cageseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/cageseq', 'versions': '1.0.0'}, 'cageseq_v1_0_1': {'id': 'HwPn00yXCVVy', 'name': 'cageseq v1.0.1', 'reference': 'https://api.github.com/repos/nf-core/cageseq', 'versions': '1.0.1'}, 'cageseq_v1_0_2': {'id': 'GoFLgB7IwEmX', 'name': 'cageseq v1.0.2', 'reference': 'https://api.github.com/repos/nf-core/cageseq', 'versions': '1.0.2'}, 'cell_ranger_v7_0_0': {'id': 't28U9XvyjCEw', 'name': 'Cell Ranger v7.0.0', 'reference': 'https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest', 'versions': '7.0.0'}, 'cell_ranger_v7_0_1': {'id': 'T3r0zDQQJ97p', 'name': 'Cell Ranger v7.0.1', 'reference': 'https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest', 'versions': '7.0.1'}, 'cell_ranger_v7_1_0': {'id': 'V2RbClSNDq4H', 'name': 'Cell Ranger v7.1.0', 'reference': 'https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest', 'versions': '7.1.0'}, 'chipseq_v1_0_0': {'id': 'LZH09tdYuMlo', 'name': 'chipseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '1.0.0'}, 'chipseq_v1_1_0': {'id': 'bl9tY5ttQXmw', 'name': 'chipseq v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '1.1.0'}, 'chipseq_v1_2_0': {'id': '05imsDRB8Dsx', 'name': 'chipseq v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '1.2.0'}, 'chipseq_v1_2_1': {'id': 'fpMxpwVTCPua', 'name': 'chipseq v1.2.1', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '1.2.1'}, 'chipseq_v1_2_2': {'id': 'DJNkZ0j5ZP1i', 'name': 'chipseq v1.2.2', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '1.2.2'}, 'chipseq_v2_0_0': {'id': 'Bjj24BtPhaIF', 'name': 'chipseq v2.0.0', 'reference': 'https://api.github.com/repos/nf-core/chipseq', 'versions': '2.0.0'}, 'circdna_v1_0_0': {'id': 'knqkNAJf1z1G', 'name': 'circdna v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/circdna', 'versions': '1.0.0'}, 'circdna_v1_0_1': {'id': '3izNWbuEeNft', 'name': 'circdna v1.0.1', 'reference': 'https://api.github.com/repos/nf-core/circdna', 'versions': '1.0.1'}, 'circdna_v1_0_2': {'id': 'YR7Sqc1yt4Fp', 'name': 'circdna v1.0.2', 'reference': 'https://api.github.com/repos/nf-core/circdna', 'versions': '1.0.2'}, 'clipseq_v1_0_0': {'id': 'qLUEax0CgvJZ', 'name': 'clipseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/clipseq', 'versions': '1.0.0'}, 'coproid_v1_0': {'id': 'SL9ib0mMr0HL', 'name': 'coproid v1.0', 'reference': 'https://api.github.com/repos/nf-core/coproid', 'versions': '1.0'}, 'coproid_v1_1': {'id': 'VH2dNcLHwVJh', 'name': 'coproid v1.1', 'reference': 'https://api.github.com/repos/nf-core/coproid', 'versions': '1.1'}, 'coproid_v1_1_1': {'id': 'EqqT50sb5lUr', 'name': 'coproid v1.1.1', 'reference': 'https://api.github.com/repos/nf-core/coproid', 'versions': '1.1.1'}, 'crisprseq_v1_0': {'id': 'Xdc9QIm9yWGW', 'name': 'crisprseq v1.0', 'reference': 'https://api.github.com/repos/nf-core/crisprseq', 'versions': '1.0'}, 'cutandrun_v1_0_0': {'id': 'YN5jhxfsugMC', 'name': 'cutandrun v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/cutandrun', 'versions': '1.0.0'}, 'cutandrun_v1_1': {'id': 'n7bAlKqzRGri', 'name': 'cutandrun v1.1', 'reference': 'https://api.github.com/repos/nf-core/cutandrun', 'versions': '1.1'}, 'cutandrun_v2_0': {'id': 'EQMWB8oLoxeP', 'name': 'cutandrun v2.0', 'reference': 'https://api.github.com/repos/nf-core/cutandrun', 'versions': '2.0'}, 'cutandrun_v3_0': {'id': 'dnGrKeQB6YiH', 'name': 'cutandrun v3.0', 'reference': 'https://api.github.com/repos/nf-core/cutandrun', 'versions': '3.0'}, 'cutandrun_v3_1': {'id': 'wliPm05Vwb9E', 'name': 'cutandrun v3.1', 'reference': 'https://api.github.com/repos/nf-core/cutandrun', 'versions': '3.1'}, 'deepvariant_v1_0': {'id': '80OdCYLpMAWE', 'name': 'deepvariant v1.0', 'reference': 'https://api.github.com/repos/nf-core/deepvariant', 'versions': '1.0'}, 'demultiplex_v1_0_0': {'id': 'VXW2WQu4u95M', 'name': 'demultiplex v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/demultiplex', 'versions': '1.0.0'}, 'demultiplex_v1_1_0': {'id': 'pMdTRl2s5nyA', 'name': 'demultiplex v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/demultiplex', 'versions': '1.1.0'}, 'demultiplex_v1_2_0': {'id': 'fB94lnyfd5w8', 'name': 'demultiplex v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/demultiplex', 'versions': '1.2.0'}, 'diaproteomics_v1_0_0': {'id': '658Emeoy6QO0', 'name': 'diaproteomics v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.0.0'}, 'diaproteomics_v1_1_0': {'id': '6bbvg1NQaj7y', 'name': 'diaproteomics v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.1.0'}, 'diaproteomics_v1_2_0': {'id': 'v6xTfYTVxDoW', 'name': 'diaproteomics v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.2.0'}, 'diaproteomics_v1_2_1': {'id': 'tVMZgOaHKExA', 'name': 'diaproteomics v1.2.1', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.2.1'}, 'diaproteomics_v1_2_2': {'id': 'JNqaF78AK9sp', 'name': 'diaproteomics v1.2.2', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.2.2'}, 'diaproteomics_v1_2_3': {'id': 'RRlgMRrHK6el', 'name': 'diaproteomics v1.2.3', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.2.3'}, 'diaproteomics_v1_2_4': {'id': 'vQjn18egS019', 'name': 'diaproteomics v1.2.4', 'reference': 'https://api.github.com/repos/nf-core/diaproteomics', 'versions': '1.2.4'}, 'differentialabundance_v1_0_0': {'id': 'xXL1CtbiQdYk', 'name': 'differentialabundance v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/differentialabundance', 'versions': '1.0.0'}, 'differentialabundance_v1_0_1': {'id': 'iLN0mJ961I5X', 'name': 'differentialabundance v1.0.1', 'reference': 'https://api.github.com/repos/nf-core/differentialabundance', 'versions': '1.0.1'}, 'differentialabundance_v1_1_0': {'id': 'BO4cy0kJGJDQ', 'name': 'differentialabundance v1.1.0', 'reference': 'https://api.github.com/repos/nf-core/differentialabundance', 'versions': '1.1.0'}, 'differentialabundance_v1_1_1': {'id': '1FxTht38WYmy', 'name': 'differentialabundance v1.1.1', 'reference': 'https://api.github.com/repos/nf-core/differentialabundance', 'versions': '1.1.1'}, 'differentialabundance_v1_2_0': {'id': 'eEr5DJJJE0Kc', 'name': 'differentialabundance v1.2.0', 'reference': 'https://api.github.com/repos/nf-core/differentialabundance', 'versions': '1.2.0'}, 'dualrnaseq_v1_0_0': {'id': 'k3CnAv0pC2UC', 'name': 'dualrnaseq v1.0.0', 'reference': 'https://api.github.com/repos/nf-core/dualrnaseq', 'versions': '1.0.0'}, 'eager_v2_0_0': {'id': 'jC3gcwBSf1XZ', 'name': 'eager v2.0.0', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.0'}, 'eager_v2_0_1': {'id': '6pP6UI4EKiTJ', 'name': 'eager v2.0.1', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.1'}, 'eager_v2_0_2': {'id': 'jfcFXOhEx6Yj', 'name': 'eager v2.0.2', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.2'}, 'eager_v2_0_3': {'id': '9IE9ElVQhecJ', 'name': 'eager v2.0.3', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.3'}, 'eager_v2_0_4': {'id': '7SWSIMG4WGAn', 'name': 'eager v2.0.4', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.4'}, 'eager_v2_0_5': {'id': '8yt5QVz1w9kl', 'name': 'eager v2.0.5', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.5'}, 'eager_v2_0_6': {'id': 'ENb1uH18ixgj', 'name': 'eager v2.0.6', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.6'}, 'eager_v2_0_7': {'id': 'DmuHZQNifKYN', 'name': 'eager v2.0.7', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.0.7'}, 'eager_v2_1_0': {'id': '0qh1uBirD88P', 'name': 'eager v2.1.0', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.1.0'}, 'eager_v2_2_0': {'id': 'qXJhuYQSWsfS', 'name': 'eager v2.2.0', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.2.0'}, 'eager_v2_2_1': {'id': '7k1pMeueqWc5', 'name': 'eager v2.2.1', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.2.1'}, 'eager_v2_2_2': {'id': 'nb0JDO9LUc8Y', 'name': 'eager v2.2.2', 'reference': 'https://api.github.com/repos/nf-core/eager', 'versions': '2.2.2'}, 'eager_v2_3_0': 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bfxpipeline_id = feature(methylseq_v2_3_0='methylseq_v2_3_0', methylseq_v2_2_0='methylseq_v2_2_0', methylseq_v2_1_0='methylseq_v2_1_0', methylseq_v2_0_0='methylseq_v2_0_0', methylseq_v1_6_1='methylseq_v1_6_1', methylseq_v1_6='methylseq_v1_6', methylseq_v1_5='methylseq_v1_5', methylseq_v1_4='methylseq_v1_4', methylseq_v1_3='methylseq_v1_3', methylseq_v1_2='methylseq_v1_2', methylseq_v1_1='methylseq_v1_1', methylseq_v1_0='methylseq_v1_0', rnaseq_v3_11_2='rnaseq_v3_11_2', rnaseq_v3_11_1='rnaseq_v3_11_1', rnaseq_v3_11_0='rnaseq_v3_11_0', rnaseq_v3_10_1='rnaseq_v3_10_1', rnaseq_v3_10='rnaseq_v3_10', rnaseq_v3_9='rnaseq_v3_9', rnaseq_v3_8_1='rnaseq_v3_8_1', rnaseq_v3_8='rnaseq_v3_8', rnaseq_v3_7='rnaseq_v3_7', rnaseq_v3_6='rnaseq_v3_6', rnaseq_v3_5='rnaseq_v3_5', rnaseq_v3_4='rnaseq_v3_4', rnaseq_v3_3='rnaseq_v3_3', rnaseq_v3_2='rnaseq_v3_2', rnaseq_v3_1='rnaseq_v3_1', rnaseq_v3_0='rnaseq_v3_0', rnaseq_v2_0='rnaseq_v2_0', rnaseq_v1_4_2='rnaseq_v1_4_2', rnaseq_v1_4_1='rnaseq_v1_4_1', rnaseq_v1_4='rnaseq_v1_4', rnaseq_v1_3='rnaseq_v1_3', rnaseq_v1_2='rnaseq_v1_2', rnaseq_v1_1='rnaseq_v1_1', rnaseq_v1_0='rnaseq_v1_0', chipseq_v2_0_0='chipseq_v2_0_0', chipseq_v1_2_2='chipseq_v1_2_2', chipseq_v1_2_1='chipseq_v1_2_1', chipseq_v1_2_0='chipseq_v1_2_0', chipseq_v1_1_0='chipseq_v1_1_0', chipseq_v1_0_0='chipseq_v1_0_0', mag_v2_3_0='mag_v2_3_0', mag_v2_2_1='mag_v2_2_1', mag_v2_2_0='mag_v2_2_0', mag_v2_1_1='mag_v2_1_1', mag_v2_1_0='mag_v2_1_0', mag_v2_0_0='mag_v2_0_0', mag_v1_2_0='mag_v1_2_0', mag_v1_1_2='mag_v1_1_2', mag_v1_1_1='mag_v1_1_1', mag_v1_1_0='mag_v1_1_0', mag_v1_0_0='mag_v1_0_0', eager_v2_4_6='eager_v2_4_6', eager_v2_4_5='eager_v2_4_5', eager_v2_4_4='eager_v2_4_4', eager_v2_4_3='eager_v2_4_3', eager_v2_4_2='eager_v2_4_2', eager_v2_4_1='eager_v2_4_1', eager_v2_4_0='eager_v2_4_0', eager_v2_3_5='eager_v2_3_5', eager_v2_3_4='eager_v2_3_4', eager_v2_3_3='eager_v2_3_3', eager_v2_3_2='eager_v2_3_2', eager_v2_3_1='eager_v2_3_1', eager_v2_3_0='eager_v2_3_0', eager_v2_2_2='eager_v2_2_2', eager_v2_2_1='eager_v2_2_1', eager_v2_2_0='eager_v2_2_0', eager_v2_1_0='eager_v2_1_0', eager_v2_0_7='eager_v2_0_7', eager_v2_0_6='eager_v2_0_6', eager_v2_0_5='eager_v2_0_5', eager_v2_0_4='eager_v2_0_4', eager_v2_0_3='eager_v2_0_3', eager_v2_0_2='eager_v2_0_2', eager_v2_0_1='eager_v2_0_1', eager_v2_0_0='eager_v2_0_0', hlatyping_v2_0_0='hlatyping_v2_0_0', hlatyping_v1_2_0='hlatyping_v1_2_0', hlatyping_v1_1_5='hlatyping_v1_1_5', hlatyping_v1_1_4='hlatyping_v1_1_4', hlatyping_v1_1_3='hlatyping_v1_1_3', hlatyping_v1_1_2='hlatyping_v1_1_2', hlatyping_v1_1_1='hlatyping_v1_1_1', hlatyping_v1_1_0='hlatyping_v1_1_0', hlatyping_v1_0_0='hlatyping_v1_0_0', hlatyping_v1_0_0_rc1='hlatyping_v1_0_0_rc1', smrnaseq_v2_1_0='smrnaseq_v2_1_0', smrnaseq_v2_0_0='smrnaseq_v2_0_0', smrnaseq_v1_1_0='smrnaseq_v1_1_0', smrnaseq_v1_0_0='smrnaseq_v1_0_0', ampliseq_v2_5_0='ampliseq_v2_5_0', ampliseq_v2_4_1='ampliseq_v2_4_1', ampliseq_v2_4_0='ampliseq_v2_4_0', ampliseq_v2_3_2='ampliseq_v2_3_2', ampliseq_v2_3_1='ampliseq_v2_3_1', ampliseq_v2_3_0='ampliseq_v2_3_0', ampliseq_v2_2_0='ampliseq_v2_2_0', ampliseq_v2_1_1='ampliseq_v2_1_1', ampliseq_v2_1_0='ampliseq_v2_1_0', ampliseq_v2_0_0='ampliseq_v2_0_0', ampliseq_v1_2_0='ampliseq_v1_2_0', ampliseq_v1_1_3='ampliseq_v1_1_3', ampliseq_v1_1_2='ampliseq_v1_1_2', ampliseq_v1_1_1='ampliseq_v1_1_1', ampliseq_v1_1_0='ampliseq_v1_1_0', ampliseq_v1_0_0='ampliseq_v1_0_0', neutronstar_v1_0_0='neutronstar_v1_0_0', deepvariant_v1_0='deepvariant_v1_0', rnafusion_v2_3_0='rnafusion_v2_3_0', rnafusion_v2_2_0='rnafusion_v2_2_0', rnafusion_v2_1_0='rnafusion_v2_1_0', rnafusion_v2_0_0='rnafusion_v2_0_0', rnafusion_v1_2_0='rnafusion_v1_2_0', rnafusion_v1_1_0='rnafusion_v1_1_0', rnafusion_v1_0_2='rnafusion_v1_0_2', rnafusion_v1_0_1='rnafusion_v1_0_1', rnafusion_v1_0='rnafusion_v1_0', mhcquant_v2_4_1='mhcquant_v2_4_1', mhcquant_v2_4_0='mhcquant_v2_4_0', mhcquant_v2_3_1='mhcquant_v2_3_1', mhcquant_v2_3_0='mhcquant_v2_3_0', mhcquant_v2_2_0='mhcquant_v2_2_0', mhcquant_v2_1_0='mhcquant_v2_1_0', mhcquant_v2_0_0='mhcquant_v2_0_0', mhcquant_v1_6_0='mhcquant_v1_6_0', mhcquant_v1_5_1='mhcquant_v1_5_1', mhcquant_v1_5='mhcquant_v1_5', mhcquant_v1_4='mhcquant_v1_4', mhcquant_v1_3='mhcquant_v1_3', mhcquant_v1_2_6='mhcquant_v1_2_6', mhcquant_v1_2_5='mhcquant_v1_2_5', mhcquant_v1_2_4='mhcquant_v1_2_4', mhcquant_v1_2_3='mhcquant_v1_2_3', mhcquant_v1_2_2='mhcquant_v1_2_2', mhcquant_v1_2_1='mhcquant_v1_2_1', mhcquant_v1_2_0='mhcquant_v1_2_0', mhcquant_v1_1_0='mhcquant_v1_1_0', mhcquant_v1_0_0='mhcquant_v1_0_0', atacseq_v2_0='atacseq_v2_0', atacseq_v1_2_2='atacseq_v1_2_2', atacseq_v1_2_1='atacseq_v1_2_1', atacseq_v1_2_0='atacseq_v1_2_0', atacseq_v1_1_0='atacseq_v1_1_0', atacseq_v1_0_0='atacseq_v1_0_0', nascent_v2_1_1='nascent_v2_1_1', nascent_v2_1_0='nascent_v2_1_0', nascent_v2_0_0='nascent_v2_0_0', nascent_v1_0='nascent_v1_0', epitopeprediction_v2_2_1='epitopeprediction_v2_2_1', epitopeprediction_v2_2_0='epitopeprediction_v2_2_0', epitopeprediction_v2_1_0='epitopeprediction_v2_1_0', epitopeprediction_v2_0_0='epitopeprediction_v2_0_0', epitopeprediction_v1_1_0='epitopeprediction_v1_1_0', epitopeprediction_v1_0_0='epitopeprediction_v1_0_0', airrflow_v3_0='airrflow_v3_0', airrflow_v2_4_0='airrflow_v2_4_0', airrflow_v2_3_0='airrflow_v2_3_0', airrflow_v2_2_0='airrflow_v2_2_0', airrflow_v2_1_0='airrflow_v2_1_0', airrflow_v2_0_0='airrflow_v2_0_0', airrflow_v1_2_0='airrflow_v1_2_0', airrflow_v1_1_0='airrflow_v1_1_0', airrflow_v1_0_0='airrflow_v1_0_0', bacass_v2_0_0='bacass_v2_0_0', bacass_v1_1_1='bacass_v1_1_1', bacass_v1_1_0='bacass_v1_1_0', bacass_v1_0_0='bacass_v1_0_0', scrnaseq_v2_2_0='scrnaseq_v2_2_0', scrnaseq_v2_1_0='scrnaseq_v2_1_0', scrnaseq_v2_0_0='scrnaseq_v2_0_0', scrnaseq_v1_1_0='scrnaseq_v1_1_0', scrnaseq_v1_0_0='scrnaseq_v1_0_0', hic_v2_0_0='hic_v2_0_0', hic_v1_3_0='hic_v1_3_0', hic_v1_2_2='hic_v1_2_2', hic_v1_2_1='hic_v1_2_1', hic_v1_2_0='hic_v1_2_0', hic_v1_1_0='hic_v1_1_0', hic_v1_0_0='hic_v1_0_0', proteomicslfq_v1_0_0='proteomicslfq_v1_0_0', coproid_v1_1_1='coproid_v1_1_1', coproid_v1_1='coproid_v1_1', coproid_v1_0='coproid_v1_0', sarek_v3_1_2='sarek_v3_1_2', sarek_v3_1_1='sarek_v3_1_1', sarek_v3_1='sarek_v3_1', sarek_v3_0_2='sarek_v3_0_2', sarek_v3_0_1='sarek_v3_0_1', sarek_v3_0='sarek_v3_0', sarek_v2_7_2='sarek_v2_7_2', sarek_v2_7_1='sarek_v2_7_1', sarek_v2_7='sarek_v2_7', sarek_v2_6_1='sarek_v2_6_1', sarek_v2_6='sarek_v2_6', sarek_v2_5_2='sarek_v2_5_2', sarek_v2_5_1='sarek_v2_5_1', sarek_v2_5='sarek_v2_5', cageseq_v1_0_2='cageseq_v1_0_2', cageseq_v1_0_1='cageseq_v1_0_1', cageseq_v1_0_0='cageseq_v1_0_0', bactmap_v1_0_0='bactmap_v1_0_0', bactmap_v0_9_1='bactmap_v0_9_1', bactmap_vv0_9='bactmap_vv0_9', mnaseseq_v1_0_0='mnaseseq_v1_0_0', kmermaid_v0_1_0_alpha='kmermaid_v0_1_0_alpha', imcyto_v1_0_0='imcyto_v1_0_0', nanoseq_v3_1_0='nanoseq_v3_1_0', nanoseq_v3_0_0='nanoseq_v3_0_0', nanoseq_v2_0_1='nanoseq_v2_0_1', nanoseq_v2_0_0='nanoseq_v2_0_0', nanoseq_v1_1_0='nanoseq_v1_1_0', nanoseq_v1_0_0='nanoseq_v1_0_0', diaproteomics_v1_2_4='diaproteomics_v1_2_4', diaproteomics_v1_2_3='diaproteomics_v1_2_3', diaproteomics_v1_2_2='diaproteomics_v1_2_2', diaproteomics_v1_2_1='diaproteomics_v1_2_1', diaproteomics_v1_2_0='diaproteomics_v1_2_0', diaproteomics_v1_1_0='diaproteomics_v1_1_0', diaproteomics_v1_0_0='diaproteomics_v1_0_0', slamseq_v1_0_0='slamseq_v1_0_0', demultiplex_v1_2_0='demultiplex_v1_2_0', demultiplex_v1_1_0='demultiplex_v1_1_0', demultiplex_v1_0_0='demultiplex_v1_0_0', metaboigniter_v1_0_1='metaboigniter_v1_0_1', metaboigniter_v1_0_0='metaboigniter_v1_0_0', viralrecon_v2_6_0='viralrecon_v2_6_0', viralrecon_v2_5='viralrecon_v2_5', viralrecon_v2_4_1='viralrecon_v2_4_1', viralrecon_v2_4='viralrecon_v2_4', viralrecon_v2_3_1='viralrecon_v2_3_1', viralrecon_v2_3='viralrecon_v2_3', viralrecon_v2_2='viralrecon_v2_2', viralrecon_v2_1='viralrecon_v2_1', viralrecon_v2_0='viralrecon_v2_0', viralrecon_v1_1_0='viralrecon_v1_1_0', viralrecon_v1_0_0='viralrecon_v1_0_0', bamtofastq_v1_2_0='bamtofastq_v1_2_0', bamtofastq_v1_1_0='bamtofastq_v1_1_0', bamtofastq_v1_0_0='bamtofastq_v1_0_0', dualrnaseq_v1_0_0='dualrnaseq_v1_0_0', clipseq_v1_0_0='clipseq_v1_0_0', cutandrun_v3_1='cutandrun_v3_1', cutandrun_v3_0='cutandrun_v3_0', cutandrun_v2_0='cutandrun_v2_0', cutandrun_v1_1='cutandrun_v1_1', cutandrun_v1_0_0='cutandrun_v1_0_0', pgdb_v1_0_0='pgdb_v1_0_0', rnavar_v1_0_0='rnavar_v1_0_0', fetchngs_v1_9='fetchngs_v1_9', fetchngs_v1_8='fetchngs_v1_8', fetchngs_v1_7='fetchngs_v1_7', fetchngs_v1_6='fetchngs_v1_6', fetchngs_v1_5='fetchngs_v1_5', fetchngs_v1_4='fetchngs_v1_4', fetchngs_v1_3='fetchngs_v1_3', fetchngs_v1_2='fetchngs_v1_2', fetchngs_v1_1='fetchngs_v1_1', fetchngs_v1_0='fetchngs_v1_0', hicar_v1_0_0='hicar_v1_0_0', circdna_v1_0_2='circdna_v1_0_2', circdna_v1_0_1='circdna_v1_0_1', circdna_v1_0_0='circdna_v1_0_0', quantms_v1_1_1='quantms_v1_1_1', quantms_v1_1_0='quantms_v1_1_0', quantms_v1_0='quantms_v1_0', funcscan_v1_0_1='funcscan_v1_0_1', funcscan_v1_0_0='funcscan_v1_0_0', taxprofiler_v1_0_0='taxprofiler_v1_0_0', proteinfold_v1_0_0='proteinfold_v1_0_0', viralintegration_v0_1_0='viralintegration_v0_1_0', hgtseq_v1_0_0='hgtseq_v1_0_0', isoseq_v1_1_4='isoseq_v1_1_4', isoseq_v1_1_3='isoseq_v1_1_3', isoseq_v1_1_2='isoseq_v1_1_2', isoseq_v1_1_1='isoseq_v1_1_1', isoseq_v1_1_0='isoseq_v1_1_0', isoseq_v1_0_0='isoseq_v1_0_0', crisprseq_v1_0='crisprseq_v1_0', phyloplace_v1_0_0='phyloplace_v1_0_0', differentialabundance_v1_2_0='differentialabundance_v1_2_0', differentialabundance_v1_1_1='differentialabundance_v1_1_1', differentialabundance_v1_1_0='differentialabundance_v1_1_0', differentialabundance_v1_0_1='differentialabundance_v1_0_1', differentialabundance_v1_0_0='differentialabundance_v1_0_0', cell_ranger_v7_1_0='cell_ranger_v7_1_0', cell_ranger_v7_0_1='cell_ranger_v7_0_1', cell_ranger_v7_0_0='cell_ranger_v7_0_0')

bfxpipelines_json = PosixPath('/home/runner/work/bionty/bionty/.nox/build-package-bionty/lib/python3.9/site-packages/bionty/data/bfxpipelines.json')

file = <_io.TextIOWrapper name='/home/runner/work/bionty/bionty/.nox/build-package-bionty/lib/python3.9/site-packages/bionty/data/bfxpipelines.json' mode='r' encoding='UTF-8'>

gene_id = feature(ncbi_gene_id='ncbi_gene_id', symbol='symbol', ensembl_gene_id='ensembl_gene_id', gene_type='gene_type', hgnc_id='hgnc_id', omim_id='omim_id', description='description', ensembl_transcript_id='ensembl_transcript_id', mgi_id='mgi_id', ensembl_protein_id='ensembl_protein_id', synonyms='synonyms')

protein_id = feature(ensembl_transcript_ids='ensembl_transcript_ids', gene_synonyms='gene_synonyms', species_id='species_id', uniprotkb_name='uniprotkb_name', uniprotkb_id='uniprotkb_id', length='length', ncbi_gene_ids='ncbi_gene_ids', gene_symbols='gene_symbols', synonyms='synonyms')