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bio-imaging-mass-cytometry-data-preprocessing

Reference examples tested with: anndata 0.10+, numpy 1.26+, pandas 2.2+, scanpy 1.10+, scipy 1.12+, steinbock 0.16+ Before using code patterns, verify...

by FreedomIntelligence

github 3 files

bio-imaging-mass-cytometry-quality-metrics

Reference examples tested with: matplotlib 3.8+, numpy 1.26+, pandas 2.2+, scipy 1.12+ Before using code patterns, verify installed versions match. If...

by FreedomIntelligence

github 3 files

bio-immunoinformatics-immunogenicity-scoring

Reference examples tested with: MHCflurry 2.1+, numpy 1.26+, pandas 2.2+ Before using code patterns, verify installed versions match. If versions diff...

by FreedomIntelligence

github 3 files

bio-immunoinformatics-mhc-binding-prediction

Reference examples tested with: MHCflurry 2.1+, pandas 2.2+ Before using code patterns, verify installed versions match. If versions differ: Python: p...

by FreedomIntelligence

github 3 files

bio-immunoinformatics-neoantigen-prediction

Reference examples tested with: Ensembl VEP 111+, MHCflurry 2.1+, pVACtools 4.1+, pandas 2.2+ Before using code patterns, verify installed versions ma...

by FreedomIntelligence

github 3 files

bio-immunoinformatics-tcr-epitope-binding

Reference examples tested with: MiXCR 4.6+, numpy 1.26+, pandas 2.2+, scikit-learn 1.4+, scipy 1.12+ Before using code patterns, verify installed vers...

by FreedomIntelligence

github 3 files

bio-long-read-sequencing-isoseq-analysis

Reference examples tested with: minimap2 2.26+, pandas 2.2+, pysam 0.22+, samtools 1.19+ Before using code patterns, verify installed versions match. ...

by FreedomIntelligence

github 4 files

bio-long-read-sequencing-nanopore-methylation

Reference examples tested with: methylKit 1.28+, minimap2 2.26+, samtools 1.19+ Before using code patterns, verify installed versions match. If versio...

by FreedomIntelligence

github 3 files

bio-longitudinal-monitoring

Reference examples tested with: matplotlib 3.8+, numpy 1.26+, pandas 2.2+, scipy 1.12+ Before using code patterns, verify installed versions match. If...

by FreedomIntelligence

github 3 files

bio-longread-qc

Reference examples tested with: BioPython 1.83+, numpy 1.26+ Before using code patterns, verify installed versions match. If versions differ: Python: ...

by FreedomIntelligence

github 3 files

bio-longread-structural-variants

Reference examples tested with: bcftools 1.19+ Before using code patterns, verify installed versions match. If versions differ: CLI: <tool> --version ...

by FreedomIntelligence

github 3 files

bio-machine-learning-atlas-mapping

import scvi import scanpy as sc adataref = sc.readh5ad('reference.h5ad') scvi.model.SCVI.setupanndata(adataref, layer='counts', batchkey='batch') refm...

by FreedomIntelligence

github 3 files