@teselagen/ove 0.8.3 → 0.8.5

package/AlignmentView/LabileSitesLayer.d.ts

@@ -0,0 +1,13 @@
+export default LabileSitesLayer;
+/**
+ * Draws vertical lines at specified labile site position.
+ *
+ * @param {Object} props
+ * @param {number} leftMargin - Width of the name column.
+ * @param {number} charWidth - Width of each character in the alignment.
+ * @param {number} sequenceLength - Number of columns in the alignment.
+ * @param {number} numTracks - Number of alignment tracks (rows).
+ * @param {number[]} positionsToMark - Array of 0-based column indices to mark.
+ * @param {number} rowHeight - Height of each alignment row (default: 24).
+ */
+declare function LabileSitesLayer({ leftMargin, charWidth, positionsToMark }: Object): import("react/jsx-runtime").JSX.Element;

package/AlignmentView/PairwiseAlignmentView.d.ts

@@ -1,9 +1 @@
-import { default as React } from '../../../../node_modules/react';
-export class PairwiseAlignmentView extends React.Component<any, any, any> {
-    constructor(props: any);
-    constructor(props: any, context: any);
-    state: {
-        currentPairwiseAlignmentIndex: undefined;
-    };
-    render(): import("react/jsx-runtime").JSX.Element;
-}
+export function PairwiseAlignmentView(props: any): import("react/jsx-runtime").JSX.Element;

package/BarPlot/index.d.ts

@@ -0,0 +1,33 @@
+/**
+ * Minimal SVG BarPlot component
+ * @param {Object} props
+ * @param {number[]} props.data - Array of numbers to plot
+ * @param {number} [props.width=300]
+ * @param {number} [props.height=150]
+ * @param {string[]} [props.barColors]
+ */
+export function BarPlot({ data, width, height, barColors, className }: {
+    data: number[];
+    width?: number | undefined;
+    height?: number | undefined;
+    barColors?: string[] | undefined;
+}): import("react/jsx-runtime").JSX.Element | null;
+export function AminoAcidCirclePlot({ data, width, className }: {
+    data: any;
+    width: any;
+    className: any;
+}): import("react/jsx-runtime").JSX.Element | null;
+/**
+ * Stacked SVG BarPlot component for multiple properties per bar
+ * @param {Object} props
+ * @param {number[][]} props.data - Array of arrays, each inner array is the values for that position
+ * @param {number} [props.width=300]
+ * @param {number} [props.height=30]
+ * @param {string[]} [props.barColors]
+ */
+export function StackedBarPlot({ data, width, height, barColors }: {
+    data: number[][];
+    width?: number | undefined;
+    height?: number | undefined;
+    barColors?: string[] | undefined;
+}): import("react/jsx-runtime").JSX.Element | null;

package/LinearView/SequenceName.d.ts

@@ -1,5 +1,6 @@
-export function SequenceName({ sequenceName, sequenceLength, isProtein }: {
+export function SequenceName({ sequenceName, sequenceLength, isProtein, showAminoAcidUnitAsCodon }: {
     sequenceName: any;
     sequenceLength: any;
     isProtein: any;
+    showAminoAcidUnitAsCodon: any;
 }): import("react/jsx-runtime").JSX.Element;

package/PropertySidePanel/calculateAminoAcidFrequency.d.ts

@@ -0,0 +1,46 @@
+/**
+ * Calculates detailed amino acid frequency, including counts and percentages for
+ * all 20 standard amino acids.
+ *
+ * @param {string} sequence The protein sequence.
+ * @returns {{
+ *   totalCount: number,
+ *   frequencies: Object<string, {count: number, percentage: number}>,
+ *   nonStandard: Object<string, number>
+ * }} A comprehensive analysis object.
+ */
+export function calculateAminoAcidFrequency(sequence: string, isProtein: any): {
+    totalCount: number;
+    frequencies: {
+        [x: string]: {
+            count: number;
+            percentage: number;
+        };
+    };
+    nonStandard: {
+        [x: string]: number;
+    };
+};
+export const aminoAcidShortNames: {
+    A: string;
+    C: string;
+    D: string;
+    E: string;
+    F: string;
+    G: string;
+    H: string;
+    I: string;
+    K: string;
+    L: string;
+    M: string;
+    N: string;
+    P: string;
+    Q: string;
+    R: string;
+    S: string;
+    T: string;
+    V: string;
+    W: string;
+    Y: string;
+    "-": string;
+};

package/PropertySidePanel/index.d.ts

@@ -0,0 +1,6 @@
+declare function _default({ properties, setProperties, style }: {
+    properties: any;
+    setProperties: any;
+    style: any;
+}): import("react/jsx-runtime").JSX.Element | null;
+export default _default;

package/RowItem/Caret/index.d.ts

@@ -1,5 +1,5 @@
 export default Caret;
-declare function Caret({ charWidth, row, sequenceLength, caretPosition, isProtein, onClick, isDraggable, leftMargin, onRightClick, style, selectionMessage, className }: {
+declare function Caret({ charWidth, row, sequenceLength, caretPosition, isProtein, onClick, isDraggable, leftMargin, onRightClick, style, selectionMessage, className, showAminoAcidUnitAsCodon }: {
     charWidth: any;
     row: any;
     sequenceLength: any;
@@ -12,4 +12,5 @@ declare function Caret({ charWidth, row, sequenceLength, caretPosition, isProtei
     style: any;
     selectionMessage: any;
     className?: string | undefined;
+    showAminoAcidUnitAsCodon: any;
 }): import("react/jsx-runtime").JSX.Element | null;

package/StatusBar/index.d.ts

@@ -1,5 +1,5 @@
 import { default as React } from '../../../../node_modules/react';
-export function StatusBar({ disableSetReadOnly, disableBpEditing, onSave, editorName, showCircularity, showMoleculeType, showReadOnly, showAvailability, showGCContentByDefault, onSelectionOrCaretChanged, GCDecimalDigits, isProtein, beforeReadOnlyChange }: {
+export function StatusBar({ disableSetReadOnly, disableBpEditing, onSave, editorName, showCircularity, showMoleculeType, showReadOnly, showAvailability, showGCContentByDefault, onSelectionOrCaretChanged, GCDecimalDigits, isProtein, showAminoAcidUnitAsCodon, beforeReadOnlyChange }: {
     disableSetReadOnly: any;
     disableBpEditing: any;
     onSave: any;
@@ -12,6 +12,7 @@ export function StatusBar({ disableSetReadOnly, disableBpEditing, onSave, editor
     onSelectionOrCaretChanged: any;
     GCDecimalDigits?: number | undefined;
     isProtein: any;
+    showAminoAcidUnitAsCodon: any;
     beforeReadOnlyChange: any;
 }): import("react/jsx-runtime").JSX.Element;
 export const EditReadOnlyItem: import('../../../../node_modules/react-redux').ConnectedComponent<React.ComponentType<import('../../../../node_modules/react-redux').Matching<any, unknown>>, {