@datagrok/bio 2.27.2 → 2.27.4

package/src/utils/antibody-numbering (WIP)/types.ts

@@ -1,69 +0,0 @@
-/** Supported numbering schemes */
-export type Scheme = 'imgt' | 'kabat' | 'chothia' | 'aho';
-
-/** Antibody chain types */
-export type ChainType = 'H' | 'K' | 'L';
-
-/** Human-readable chain group */
-export type ChainGroup = 'Heavy' | 'Light';
-
-/** A single numbered position with its amino acid */
-export interface NumberingEntry {
-  /** Position code (e.g. "1", "27A", "111A") */
-  position: string;
-  /** Single-letter amino acid at this position */
-  aa: string;
-}
-
-/** Region annotation for a numbered antibody */
-export interface RegionAnnotation {
-  id: string;
-  name: string;
-  description: string;
-  start: string;
-  end: string;
-  visualType: 'region';
-  category: 'structure';
-  sourceScheme: string;
-  autoGenerated: boolean;
-}
-
-/** Result of numbering a single antibody sequence */
-export interface NumberingResult {
-  /** Comma-separated position names for each numbered residue */
-  positionNames: string;
-  /** Chain type: 'Heavy' or 'Light' */
-  chainType: ChainGroup;
-  /** Chain type code: 'H', 'K', or 'L' */
-  chainTypeCode: ChainType | '';
-  /** Region annotations as structured objects */
-  annotations: RegionAnnotation[];
-  /** Detailed numbering: position -> amino acid */
-  numberingDetail: NumberingEntry[];
-  /** Map from position code to character index in the original sequence */
-  numberingMap: Record<string, number>;
-  /** Percent identity of the alignment (0-1) */
-  percentIdentity: number;
-  /** Error message if numbering failed, empty string otherwise */
-  error: string;
-  /**
-   * Full numbering array aligned to input sequence.
-   * Each element is a position code or '-' for residues outside the variable region.
-   */
-  numbering: string[];
-}
-
-/** Consensus profile: for each position, which amino acids are expected */
-export type ConsensusProfile = Map<number, string[]>;
-
-/** Internal alignment result */
-export interface AlignmentResult {
-  /** Position code for each residue in the input, or '-' */
-  numbering: string[];
-  /** Percent identity */
-  percentIdentity: number;
-  /** Detected chain type */
-  chainType: ChainType;
-  /** Error message or empty string */
-  error: string;
-}