Index A | B | C | D | F | G | I | L | M | O | P | Q | S | T | U A AFHomodimer (class in gcell.protein.af2) AFMonomer (class in gcell.protein.af2) AFMultimer (class in gcell.protein.af2) AFPairseg (class in gcell.protein.af2) AFResult (class in gcell.protein.af2) B batch_download_xml() (gcell.protein.uniprot.UniProtAPI method) C Celltype (class in gcell.cell.celltype) conv_size (gcell.dna.track.Track property) D DEFAULT_VERSIONS (gcell.rna.gencode.Gencode attribute) download_database() (gcell.protein.uniprot.UniProtAPI method) download_xml() (gcell.protein.uniprot.UniProtAPI method) F from_config() (gcell.cell.celltype.GETHydraCellType class method) (gcell.rna.gencode.Gencode class method) G gcell.cell.celltype module gcell.dna module gcell.ontology.pathway module gcell.protein module gcell.rna module Gencode (class in gcell.rna.gencode) Gene (class in gcell.rna.gene) gene_by_motif (gcell.cell.celltype.Celltype property) (gcell.cell.celltype.GETCellType property) (gcell.cell.celltype.GETHydraCellType property) gene_jacobian_summary() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) gene_to_chrom (gcell.rna.gencode.Gencode property) gene_to_id (gcell.rna.gencode.Gencode property) gene_to_strand (gcell.rna.gencode.Gencode property) gene_to_strand_numeric (gcell.rna.gencode.Gencode property) gene_to_tes (gcell.rna.gencode.Gencode property) gene_to_tss (gcell.rna.gencode.Gencode property) gene_to_type (gcell.rna.gencode.Gencode property) GeneExp (class in gcell.rna.gene) generate_bedgraph() (gcell.dna.track.Track method) generate_bigwig() (gcell.dna.track.Track method) GeneSets (class in gcell.rna.gene) genomic_range (gcell.rna.gene.Gene property) (gcell.rna.gene.GeneExp property) get_domains() (gcell.protein.uniprot.UniProtAPI method) get_exp_feather() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) get_gene() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) get_gene_accessibility() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_annot() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_by_motif() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_chromosome() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_id() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) get_gene_idx() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_jacobian() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_jacobian_region_norm() (gcell.cell.celltype.GETHydraCellType method) get_gene_jacobian_summary() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_name_list() (gcell.dna.motif.MotifCluster method) get_gene_obs() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_pred() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_sets() (gcell.ontology.pathway.Pathways method) get_gene_strand() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_tss() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_gene_tss_start() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_genebodies() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) get_genes() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) get_genes_exp() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_highest_exp_genes() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_input_data() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_lddt_from_gene_name() (in module gcell.protein) get_lddt_from_uniprot_id() (in module gcell.protein) get_local_iqr_peak() (gcell.dna.track.Track method) get_powerlaw_at_distance() (gcell.cell.celltype.GETHydraCellType method) get_protein_info() (gcell.protein.uniprot.UniProtAPI method) get_protein_sequence() (gcell.protein.uniprot.UniProtAPI method) get_sample_from_peak() (gcell.rna.gene.TSS method) get_seq_from_gene_name() (in module gcell.protein) get_seq_from_uniprot_id() (in module gcell.protein) get_tes_track() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) get_tes_track_obj() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) get_tf_exp_mean() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_tf_exp_str() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_tf_pathway() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_track() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) get_track_obj() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) get_tss_idx() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_tss_jacobian() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) get_tss_track() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) (gcell.rna.gene.GeneSets method) get_tss_track_obj() (gcell.rna.gene.Gene method) (gcell.rna.gene.GeneExp method) get_uniprot_from_gene_name() (in module gcell.protein) get_uniprot_id() (gcell.protein.uniprot.UniProtAPI method) GETCellType (class in gcell.cell.celltype) GETHydraCellType (class in gcell.cell.celltype) GTF (class in gcell.rna.gtf) I id_to_gene (gcell.rna.gencode.Gencode property) L load_gene_annot() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) M module gcell.cell.celltype gcell.dna gcell.ontology.pathway gcell.protein gcell.rna Motif (class in gcell.dna.motif) MotifCluster (class in gcell.dna.motif) O original_gtf (gcell.rna.gencode.Gencode property) P Pathways (class in gcell.ontology.pathway) plot_gene_motifs() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plot_gene_regions() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plot_logo() (gcell.dna.motif.Motif method) plot_plddt_gene1() (gcell.protein.af2.AFPairseg method) plot_plddt_gene2() (gcell.protein.af2.AFPairseg method) plot_region() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plot_region_plotly() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plot_score_heatmap() (gcell.protein.af2.AFPairseg method) plot_tracks() (gcell.dna.track.Track method) plot_tracks_with_genebody() (gcell.dna.track.Track method) plotly_gene_exp() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plotly_motif_subnet() (gcell.cell.celltype.Celltype method) (gcell.cell.celltype.GETCellType method) (gcell.cell.celltype.GETHydraCellType method) plotly_plddt_gene1() (gcell.protein.af2.AFPairseg method) plotly_plddt_gene2() (gcell.protein.af2.AFPairseg method) Q query_pathway() (gcell.ontology.pathway.Pathways method) query_region() (gcell.rna.gencode.Gencode method) (gcell.rna.gtf.GTF method) S search_proteins() (gcell.protein.uniprot.UniProtAPI method) T tes (gcell.rna.gene.Gene property) (gcell.rna.gene.GeneExp property) tes_list (gcell.rna.gene.Gene property) (gcell.rna.gene.GeneExp property) Track (class in gcell.dna.track) TSS (class in gcell.rna.gene) tss (gcell.rna.gene.Gene property) (gcell.rna.gene.GeneExp property) tss_coordinate (gcell.rna.gene.Gene property) (gcell.rna.gene.GeneExp property) U UniProtAPI (class in gcell.protein.uniprot)
