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Installation
API
DNA Module API Documentation
gcell.dna.motif.Motif
gcell.dna.motif.Motif.plot_logo
gcell.dna.motif.MotifCluster
gcell.dna.motif.MotifCluster.get_gene_name_list
gcell.dna.track.Track
gcell.dna.track.Track.conv_size
gcell.dna.track.Track.generate_bedgraph
gcell.dna.track.Track.generate_bigwig
gcell.dna.track.Track.get_local_iqr_peak
gcell.dna.track.Track.plot_tracks
gcell.dna.track.Track.plot_tracks_with_genebody
RNA Module API Documentation
gcell.rna.gencode.Gencode
gcell.rna.gencode.Gencode.DEFAULT_VERSIONS
gcell.rna.gencode.Gencode.gene_to_chrom
gcell.rna.gencode.Gencode.gene_to_id
gcell.rna.gencode.Gencode.gene_to_strand
gcell.rna.gencode.Gencode.gene_to_strand_numeric
gcell.rna.gencode.Gencode.gene_to_tes
gcell.rna.gencode.Gencode.gene_to_tss
gcell.rna.gencode.Gencode.gene_to_type
gcell.rna.gencode.Gencode.id_to_gene
gcell.rna.gencode.Gencode.original_gtf
gcell.rna.gencode.Gencode.from_config
gcell.rna.gencode.Gencode.get_exp_feather
gcell.rna.gencode.Gencode.get_gene
gcell.rna.gencode.Gencode.get_gene_id
gcell.rna.gencode.Gencode.get_genebodies
gcell.rna.gencode.Gencode.get_genes
gcell.rna.gencode.Gencode.query_region
gcell.rna.gtf.GTF
gcell.rna.gtf.GTF.get_exp_feather
gcell.rna.gtf.GTF.get_gene
gcell.rna.gtf.GTF.get_gene_id
gcell.rna.gtf.GTF.get_genebodies
gcell.rna.gtf.GTF.get_genes
gcell.rna.gtf.GTF.query_region
gcell.rna.gene.Gene
gcell.rna.gene.Gene.genomic_range
gcell.rna.gene.Gene.tes
gcell.rna.gene.Gene.tes_list
gcell.rna.gene.Gene.tss
gcell.rna.gene.Gene.tss_coordinate
gcell.rna.gene.Gene.get_tes_track
gcell.rna.gene.Gene.get_tes_track_obj
gcell.rna.gene.Gene.get_track
gcell.rna.gene.Gene.get_track_obj
gcell.rna.gene.Gene.get_tss_track
gcell.rna.gene.Gene.get_tss_track_obj
gcell.rna.gene.TSS
gcell.rna.gene.TSS.get_sample_from_peak
gcell.rna.gene.GeneExp
gcell.rna.gene.GeneExp.genomic_range
gcell.rna.gene.GeneExp.tes
gcell.rna.gene.GeneExp.tes_list
gcell.rna.gene.GeneExp.tss
gcell.rna.gene.GeneExp.tss_coordinate
gcell.rna.gene.GeneExp.get_tes_track
gcell.rna.gene.GeneExp.get_tes_track_obj
gcell.rna.gene.GeneExp.get_track
gcell.rna.gene.GeneExp.get_track_obj
gcell.rna.gene.GeneExp.get_tss_track
gcell.rna.gene.GeneExp.get_tss_track_obj
gcell.rna.gene.GeneSets
gcell.rna.gene.GeneSets.get_tss_track
Protein Module API Documentation
gcell.protein.get_seq_from_gene_name
gcell.protein.get_seq_from_uniprot_id
gcell.protein.get_lddt_from_gene_name
gcell.protein.get_lddt_from_uniprot_id
gcell.protein.get_uniprot_from_gene_name
gcell.protein.uniprot.UniProtAPI
gcell.protein.uniprot.UniProtAPI.batch_download_xml
gcell.protein.uniprot.UniProtAPI.download_database
gcell.protein.uniprot.UniProtAPI.download_xml
gcell.protein.uniprot.UniProtAPI.get_domains
gcell.protein.uniprot.UniProtAPI.get_protein_info
gcell.protein.uniprot.UniProtAPI.get_protein_sequence
gcell.protein.uniprot.UniProtAPI.get_uniprot_id
gcell.protein.uniprot.UniProtAPI.search_proteins
gcell.protein.af2.AFResult
gcell.protein.af2.AFMonomer
gcell.protein.af2.AFHomodimer
gcell.protein.af2.AFMultimer
gcell.protein.af2.AFPairseg
gcell.protein.af2.AFPairseg.plot_plddt_gene1
gcell.protein.af2.AFPairseg.plot_plddt_gene2
gcell.protein.af2.AFPairseg.plot_score_heatmap
gcell.protein.af2.AFPairseg.plotly_plddt_gene1
gcell.protein.af2.AFPairseg.plotly_plddt_gene2
Pathway Module API Documentation
gcell.ontology.pathway.Pathways
gcell.ontology.pathway.Pathways.get_gene_sets
gcell.ontology.pathway.Pathways.query_pathway
Celltype Module API Documentation
gcell.cell.celltype.Celltype
gcell.cell.celltype.Celltype.gene_by_motif
gcell.cell.celltype.Celltype.gene_jacobian_summary
gcell.cell.celltype.Celltype.get_gene_accessibility
gcell.cell.celltype.Celltype.get_gene_annot
gcell.cell.celltype.Celltype.get_gene_by_motif
gcell.cell.celltype.Celltype.get_gene_chromosome
gcell.cell.celltype.Celltype.get_gene_idx
gcell.cell.celltype.Celltype.get_gene_jacobian
gcell.cell.celltype.Celltype.get_gene_jacobian_summary
gcell.cell.celltype.Celltype.get_gene_obs
gcell.cell.celltype.Celltype.get_gene_pred
gcell.cell.celltype.Celltype.get_gene_strand
gcell.cell.celltype.Celltype.get_gene_tss
gcell.cell.celltype.Celltype.get_gene_tss_start
gcell.cell.celltype.Celltype.get_genes_exp
gcell.cell.celltype.Celltype.get_highest_exp_genes
gcell.cell.celltype.Celltype.get_input_data
gcell.cell.celltype.Celltype.get_tf_exp_mean
gcell.cell.celltype.Celltype.get_tf_exp_str
gcell.cell.celltype.Celltype.get_tf_pathway
gcell.cell.celltype.Celltype.get_tss_idx
gcell.cell.celltype.Celltype.get_tss_jacobian
gcell.cell.celltype.Celltype.load_gene_annot
gcell.cell.celltype.Celltype.plot_gene_motifs
gcell.cell.celltype.Celltype.plot_gene_regions
gcell.cell.celltype.Celltype.plot_region
gcell.cell.celltype.Celltype.plot_region_plotly
gcell.cell.celltype.Celltype.plotly_gene_exp
gcell.cell.celltype.Celltype.plotly_motif_subnet
gcell.cell.celltype.GETCellType
gcell.cell.celltype.GETCellType.gene_by_motif
gcell.cell.celltype.GETCellType.gene_jacobian_summary
gcell.cell.celltype.GETCellType.get_gene_accessibility
gcell.cell.celltype.GETCellType.get_gene_annot
gcell.cell.celltype.GETCellType.get_gene_by_motif
gcell.cell.celltype.GETCellType.get_gene_chromosome
gcell.cell.celltype.GETCellType.get_gene_idx
gcell.cell.celltype.GETCellType.get_gene_jacobian
gcell.cell.celltype.GETCellType.get_gene_jacobian_summary
gcell.cell.celltype.GETCellType.get_gene_obs
gcell.cell.celltype.GETCellType.get_gene_pred
gcell.cell.celltype.GETCellType.get_gene_strand
gcell.cell.celltype.GETCellType.get_gene_tss
gcell.cell.celltype.GETCellType.get_gene_tss_start
gcell.cell.celltype.GETCellType.get_genes_exp
gcell.cell.celltype.GETCellType.get_highest_exp_genes
gcell.cell.celltype.GETCellType.get_input_data
gcell.cell.celltype.GETCellType.get_tf_exp_mean
gcell.cell.celltype.GETCellType.get_tf_exp_str
gcell.cell.celltype.GETCellType.get_tf_pathway
gcell.cell.celltype.GETCellType.get_tss_idx
gcell.cell.celltype.GETCellType.get_tss_jacobian
gcell.cell.celltype.GETCellType.load_gene_annot
gcell.cell.celltype.GETCellType.plot_gene_motifs
gcell.cell.celltype.GETCellType.plot_gene_regions
gcell.cell.celltype.GETCellType.plot_region
gcell.cell.celltype.GETCellType.plot_region_plotly
gcell.cell.celltype.GETCellType.plotly_gene_exp
gcell.cell.celltype.GETCellType.plotly_motif_subnet
gcell.cell.celltype.GETHydraCellType
gcell.cell.celltype.GETHydraCellType.gene_by_motif
gcell.cell.celltype.GETHydraCellType.from_config
gcell.cell.celltype.GETHydraCellType.gene_jacobian_summary
gcell.cell.celltype.GETHydraCellType.get_gene_accessibility
gcell.cell.celltype.GETHydraCellType.get_gene_annot
gcell.cell.celltype.GETHydraCellType.get_gene_by_motif
gcell.cell.celltype.GETHydraCellType.get_gene_chromosome
gcell.cell.celltype.GETHydraCellType.get_gene_idx
gcell.cell.celltype.GETHydraCellType.get_gene_jacobian
gcell.cell.celltype.GETHydraCellType.get_gene_jacobian_region_norm
gcell.cell.celltype.GETHydraCellType.get_gene_jacobian_summary
gcell.cell.celltype.GETHydraCellType.get_gene_obs
gcell.cell.celltype.GETHydraCellType.get_gene_pred
gcell.cell.celltype.GETHydraCellType.get_gene_strand
gcell.cell.celltype.GETHydraCellType.get_gene_tss
gcell.cell.celltype.GETHydraCellType.get_gene_tss_start
gcell.cell.celltype.GETHydraCellType.get_genes_exp
gcell.cell.celltype.GETHydraCellType.get_highest_exp_genes
gcell.cell.celltype.GETHydraCellType.get_input_data
gcell.cell.celltype.GETHydraCellType.get_powerlaw_at_distance
gcell.cell.celltype.GETHydraCellType.get_tf_exp_mean
gcell.cell.celltype.GETHydraCellType.get_tf_exp_str
gcell.cell.celltype.GETHydraCellType.get_tf_pathway
gcell.cell.celltype.GETHydraCellType.get_tss_idx
gcell.cell.celltype.GETHydraCellType.get_tss_jacobian
gcell.cell.celltype.GETHydraCellType.load_gene_annot
gcell.cell.celltype.GETHydraCellType.plot_gene_motifs
gcell.cell.celltype.GETHydraCellType.plot_gene_regions
gcell.cell.celltype.GETHydraCellType.plot_region
gcell.cell.celltype.GETHydraCellType.plot_region_plotly
gcell.cell.celltype.GETHydraCellType.plotly_gene_exp
gcell.cell.celltype.GETHydraCellType.plotly_motif_subnet
Release notes
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Contributing
Contributing code
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References
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Current developers
Current developers
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