├── .pre-commit-config.yaml ├── LICENSE ├── Mando.py ├── README.md ├── assignReadsToIsoforms.py ├── clean_psl.py ├── defineIsoforms.py ├── emtrey.py ├── filterIsoforms.py ├── groupIsoforms.py ├── setup.sh └── utils ├── GenomeBrowserShot.py ├── HLAtyping.py ├── SpliceDefineConsensus.py ├── TurboPhaser.py ├── convertOutput2LRGASPformat.py ├── convertQuantToTPM.py ├── emtreyProcessSamBatch.py ├── removePolyA.py ├── removePolyA_nonDirectionalInput.py └── removePolyA_simulatedReads.py /.pre-commit-config.yaml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/christopher-vollmers/Mandalorion/HEAD/.pre-commit-config.yaml -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/christopher-vollmers/Mandalorion/HEAD/LICENSE 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