@fideus-labs/ngff-zarr 0.17.0 → 0.18.1

package/esm/browser-mod.d.ts

@@ -1,10 +1,10 @@
 export { config, setWorkerPoolSize } from "./config.js";
-export { type ChunkCache, fromNgffZarr, type FromNgffZarrOptions, type MemoryStore, } from "./io/from_ngff_zarr-browser.js";
+export { type ChunkCache, fromNgffZarr, type FromNgffZarrOptions, fromOmeZarr, type FromOmeZarrOptions, type MemoryStore, } from "./io/from_ngff_zarr-browser.js";
 export { itkImageToNgffImage, type ItkImageToNgffImageOptions, } from "./io/itk_image_to_ngff_image.js";
 export { dataTypeToComponentType, ngffImageToItkImage, type NgffImageToItkImageOptions, } from "./io/ngff_image_to_itk_image.js";
 export type { MemoryStoreToZipOptions } from "./io/rfc9_zip.js";
 export { getZipFileCompressionMethod, getZipFileList, memoryStoreToZip, orderFilesForRfc9, readOzxVersion, } from "./io/rfc9_zip.js";
-export { isOzxPath, toNgffZarr, type ToNgffZarrOptions, toNgffZarrOzx, type ToNgffZarrOzxOptions, } from "./io/to_ngff_zarr-browser.js";
+export { isOzxPath, toNgffZarr, type ToNgffZarrOptions, toNgffZarrOzx, type ToNgffZarrOzxOptions, toOmeZarr, type ToOmeZarrOptions, toOmeZarrOzx, type ToOmeZarrOzxOptions, } from "./io/to_ngff_zarr-browser.js";
 export * from "./process/to_multiscales-browser.js";
 export * from "./schemas/methods.js";
 export * from "./schemas/multiscales.js";
@@ -17,13 +17,13 @@ export * from "./types/multiscales.js";
 export * from "./types/ngff_image.js";
 export * from "./types/units.js";
 export * from "./types/zarr_metadata.js";
-export type { ZarrCodec } from "./utils/codecs.js";
-export { bytesOnlyCodecs, defaultCodecs } from "./utils/codecs.js";
+export type { CodecName, ZarrCodec } from "./utils/codecs.js";
+export { AVAILABLE_CODECS, bytesOnlyCodecs, codecFromName, defaultCodecs, } from "./utils/codecs.js";
 export type { ComputeOmeroFromMultiscalesOptions, ComputeOmeroOptions, } from "./utils/compute_omero.js";
 export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
 export type { ChannelStatisticsAccumulator } from "./utils/compute_omero-shared.js";
 export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
-export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
+export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, createNgffMultiscales, } from "./utils/factory.js";
 export { getMethodMetadata } from "./utils/method_metadata.js";
 export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
 export { terminateWorkerPool, zarrGet, zarrSet } from "./utils/worker_pool.js";

package/esm/browser-mod.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"browser-mod.d.ts","sourceRoot":"","sources":["../src/browser-mod.ts"],"names":[],"mappings":"AAQA,OAAO,EAAE,MAAM,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AAIxD,OAAO,EACL,KAAK,UAAU,EACf,YAAY,EACZ,KAAK,mBAAmB,EACxB,KAAK,WAAW,GACjB,MAAM,gCAAgC,CAAC;AAExC,OAAO,EACL,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,uBAAuB,EACvB,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,YAAY,EAAE,uBAAuB,EAAE,MAAM,kBAAkB,CAAC;AAEhE,OAAO,EACL,2BAA2B,EAC3B,cAAc,EACd,gBAAgB,EAChB,iBAAiB,EACjB,cAAc,GACf,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EACL,SAAS,EACT,UAAU,EACV,KAAK,iBAAiB,EACtB,aAAa,EACb,KAAK,oBAAoB,GAC1B,MAAM,8BAA8B,CAAC;AAEtC,cAAc,qCAAqC,CAAC;AACpD,cAAc,sBAAsB,CAAC;AACrC,cAAc,0BAA0B,CAAC;AACzC,cAAc,yBAAyB,CAAC;AACxC,cAAc,oBAAoB,CAAC;AACnC,cAAc,4BAA4B,CAAC;AAC3C,cAAc,4BAA4B,CAAC;AAC3C,cAAc,oBAAoB,CAAC;AACnC,cAAc,wBAAwB,CAAC;AACvC,cAAc,uBAAuB,CAAC;AACtC,cAAc,kBAAkB,CAAC;AACjC,cAAc,0BAA0B,CAAC;AACzC,YAAY,EAAE,SAAS,EAAE,MAAM,mBAAmB,CAAC;AACnD,OAAO,EAAE,eAAe,EAAE,aAAa,EAAE,MAAM,mBAAmB,CAAC;AACnE,YAAY,EACV,kCAAkC,EAClC,mBAAmB,GACpB,MAAM,0BAA0B,CAAC;AAElC,OAAO,EACL,2BAA2B,EAC3B,yBAAyB,EACzB,gBAAgB,EAChB,cAAc,EACd,wBAAwB,GACzB,MAAM,0BAA0B,CAAC;AAClC,YAAY,EAAE,4BAA4B,EAAE,MAAM,iCAAiC,CAAC;AAEpF,OAAO,EACL,0BAA0B,EAC1B,wBAAwB,EACxB,iBAAiB,EACjB,cAAc,EACd,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,iBAAiB,GAClB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,UAAU,EACV,aAAa,EACb,cAAc,EACd,iBAAiB,EACjB,eAAe,GAChB,MAAM,oBAAoB,CAAC;AAC5B,OAAO,EAAE,iBAAiB,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,EACL,gBAAgB,EAChB,WAAW,EACX,gBAAgB,GACjB,MAAM,uBAAuB,CAAC;AAC/B,OAAO,EAAE,mBAAmB,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC"}
+{"version":3,"file":"browser-mod.d.ts","sourceRoot":"","sources":["../src/browser-mod.ts"],"names":[],"mappings":"AAQA,OAAO,EAAE,MAAM,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AAIxD,OAAO,EACL,KAAK,UAAU,EACf,YAAY,EACZ,KAAK,mBAAmB,EACxB,WAAW,EACX,KAAK,kBAAkB,EACvB,KAAK,WAAW,GACjB,MAAM,gCAAgC,CAAC;AAExC,OAAO,EACL,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,uBAAuB,EACvB,mBAAmB,EACnB,KAAK,0BAA0B,GAChC,MAAM,iCAAiC,CAAC;AACzC,YAAY,EAAE,uBAAuB,EAAE,MAAM,kBAAkB,CAAC;AAEhE,OAAO,EACL,2BAA2B,EAC3B,cAAc,EACd,gBAAgB,EAChB,iBAAiB,EACjB,cAAc,GACf,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EACL,SAAS,EACT,UAAU,EACV,KAAK,iBAAiB,EACtB,aAAa,EACb,KAAK,oBAAoB,EACzB,SAAS,EACT,KAAK,gBAAgB,EACrB,YAAY,EACZ,KAAK,mBAAmB,GACzB,MAAM,8BAA8B,CAAC;AAEtC,cAAc,qCAAqC,CAAC;AACpD,cAAc,sBAAsB,CAAC;AACrC,cAAc,0BAA0B,CAAC;AACzC,cAAc,yBAAyB,CAAC;AACxC,cAAc,oBAAoB,CAAC;AACnC,cAAc,4BAA4B,CAAC;AAC3C,cAAc,4BAA4B,CAAC;AAC3C,cAAc,oBAAoB,CAAC;AACnC,cAAc,wBAAwB,CAAC;AACvC,cAAc,uBAAuB,CAAC;AACtC,cAAc,kBAAkB,CAAC;AACjC,cAAc,0BAA0B,CAAC;AACzC,YAAY,EAAE,SAAS,EAAE,SAAS,EAAE,MAAM,mBAAmB,CAAC;AAC9D,OAAO,EACL,gBAAgB,EAChB,eAAe,EACf,aAAa,EACb,aAAa,GACd,MAAM,mBAAmB,CAAC;AAC3B,YAAY,EACV,kCAAkC,EAClC,mBAAmB,GACpB,MAAM,0BAA0B,CAAC;AAElC,OAAO,EACL,2BAA2B,EAC3B,yBAAyB,EACzB,gBAAgB,EAChB,cAAc,EACd,wBAAwB,GACzB,MAAM,0BAA0B,CAAC;AAClC,YAAY,EAAE,4BAA4B,EAAE,MAAM,iCAAiC,CAAC;AAEpF,OAAO,EACL,0BAA0B,EAC1B,wBAAwB,EACxB,iBAAiB,EACjB,cAAc,EACd,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,iBAAiB,GAClB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,UAAU,EACV,aAAa,EACb,cAAc,EACd,iBAAiB,EACjB,eAAe,EACf,qBAAqB,GACtB,MAAM,oBAAoB,CAAC;AAC5B,OAAO,EAAE,iBAAiB,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,EACL,gBAAgB,EAChB,WAAW,EACX,gBAAgB,GACjB,MAAM,uBAAuB,CAAC;AAC/B,OAAO,EAAE,mBAAmB,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC"}

package/esm/browser-mod.js

@@ -9,13 +9,13 @@ export { config, setWorkerPoolSize } from "./config.js";
 // Browser-compatible I/O modules
 // Note: Uses browser-specific versions that don't import @zarrita/storage
 // (which contains Node.js-specific modules like node:fs, node:buffer, node:path)
-export { fromNgffZarr, } from "./io/from_ngff_zarr-browser.js";
+export { fromNgffZarr, fromOmeZarr, } from "./io/from_ngff_zarr-browser.js";
 // ITK-Wasm conversion utilities
 export { itkImageToNgffImage, } from "./io/itk_image_to_ngff_image.js";
 export { dataTypeToComponentType, ngffImageToItkImage, } from "./io/ngff_image_to_itk_image.js";
 // RFC-9 exports
 export { getZipFileCompressionMethod, getZipFileList, memoryStoreToZip, orderFilesForRfc9, readOzxVersion, } from "./io/rfc9_zip.js";
-export { isOzxPath, toNgffZarr, toNgffZarrOzx, } from "./io/to_ngff_zarr-browser.js";
+export { isOzxPath, toNgffZarr, toNgffZarrOzx, toOmeZarr, toOmeZarrOzx, } from "./io/to_ngff_zarr-browser.js";
 // Browser-compatible processing modules
 export * from "./process/to_multiscales-browser.js";
 export * from "./schemas/methods.js";
@@ -29,12 +29,12 @@ export * from "./types/multiscales.js";
 export * from "./types/ngff_image.js";
 export * from "./types/units.js";
 export * from "./types/zarr_metadata.js";
-export { bytesOnlyCodecs, defaultCodecs } from "./utils/codecs.js";
+export { AVAILABLE_CODECS, bytesOnlyCodecs, codecFromName, defaultCodecs, } from "./utils/codecs.js";
 // OMERO computation with WorkerPool
 export { computeOmeroFromMultiscales, computeOmeroFromNgffImage, getDefaultColors, GLASBEY_COLORS, terminateOmeroWorkerPool, } from "./utils/compute_omero.js";
 // Shared OMERO computation functions for benchmarking and direct use
 export { buildOmeroFromAccumulators, computeChannelStatistics, createAccumulator, extractChannel, finalizeStatistics, QUANTILE_SAMPLE_SIZE, updateAccumulator, validateQuantiles, } from "./utils/compute_omero-shared.js";
-export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, } from "./utils/factory.js";
+export { createAxis, createDataset, createMetadata, createMultiscales, createNgffImage, createNgffMultiscales, } from "./utils/factory.js";
 export { getMethodMetadata } from "./utils/method_metadata.js";
 export { isValidDimension, isValidUnit, validateMetadata, } from "./utils/validation.js";
 export { terminateWorkerPool, zarrGet, zarrSet } from "./utils/worker_pool.js";

package/esm/browser-mod.js.map

@@ -1 +1 @@
-{"version":3,"file":"browser-mod.js","sourceRoot":"","sources":["../src/browser-mod.ts"],"names":[],"mappings":"AAAA,wDAAwD;AACxD,+BAA+B;AAC/B,oCAAoC;AACpC,wEAAwE;AACxE,EAAE;AACF,kFAAkF;AAClF,yEAAyE;AAEzE,OAAO,EAAE,MAAM,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AACxD,iCAAiC;AACjC,0EAA0E;AAC1E,iFAAiF;AACjF,OAAO,EAEL,YAAY,GAGb,MAAM,gCAAgC,CAAC;AACxC,gCAAgC;AAChC,OAAO,EACL,mBAAmB,GAEpB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,uBAAuB,EACvB,mBAAmB,GAEpB,MAAM,iCAAiC,CAAC;AAEzC,gBAAgB;AAChB,OAAO,EACL,2BAA2B,EAC3B,cAAc,EACd,gBAAgB,EAChB,iBAAiB,EACjB,cAAc,GACf,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EACL,SAAS,EACT,UAAU,EAEV,aAAa,GAEd,MAAM,8BAA8B,CAAC;AACtC,wCAAwC;AACxC,cAAc,qCAAqC,CAAC;AACpD,cAAc,sBAAsB,CAAC;AACrC,cAAc,0BAA0B,CAAC;AACzC,cAAc,yBAAyB,CAAC;AACxC,cAAc,oBAAoB,CAAC;AACnC,cAAc,4BAA4B,CAAC;AAC3C,cAAc,4BAA4B,CAAC;AAC3C,cAAc,oBAAoB,CAAC;AACnC,cAAc,wBAAwB,CAAC;AACvC,cAAc,uBAAuB,CAAC;AACtC,cAAc,kBAAkB,CAAC;AACjC,cAAc,0BAA0B,CAAC;AAEzC,OAAO,EAAE,eAAe,EAAE,aAAa,EAAE,MAAM,mBAAmB,CAAC;AAKnE,oCAAoC;AACpC,OAAO,EACL,2BAA2B,EAC3B,yBAAyB,EACzB,gBAAgB,EAChB,cAAc,EACd,wBAAwB,GACzB,MAAM,0BAA0B,CAAC;AAElC,qEAAqE;AACrE,OAAO,EACL,0BAA0B,EAC1B,wBAAwB,EACxB,iBAAiB,EACjB,cAAc,EACd,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,iBAAiB,GAClB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,UAAU,EACV,aAAa,EACb,cAAc,EACd,iBAAiB,EACjB,eAAe,GAChB,MAAM,oBAAoB,CAAC;AAC5B,OAAO,EAAE,iBAAiB,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,EACL,gBAAgB,EAChB,WAAW,EACX,gBAAgB,GACjB,MAAM,uBAAuB,CAAC;AAC/B,OAAO,EAAE,mBAAmB,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC"}
+{"version":3,"file":"browser-mod.js","sourceRoot":"","sources":["../src/browser-mod.ts"],"names":[],"mappings":"AAAA,wDAAwD;AACxD,+BAA+B;AAC/B,oCAAoC;AACpC,wEAAwE;AACxE,EAAE;AACF,kFAAkF;AAClF,yEAAyE;AAEzE,OAAO,EAAE,MAAM,EAAE,iBAAiB,EAAE,MAAM,aAAa,CAAC;AACxD,iCAAiC;AACjC,0EAA0E;AAC1E,iFAAiF;AACjF,OAAO,EAEL,YAAY,EAEZ,WAAW,GAGZ,MAAM,gCAAgC,CAAC;AACxC,gCAAgC;AAChC,OAAO,EACL,mBAAmB,GAEpB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,uBAAuB,EACvB,mBAAmB,GAEpB,MAAM,iCAAiC,CAAC;AAEzC,gBAAgB;AAChB,OAAO,EACL,2BAA2B,EAC3B,cAAc,EACd,gBAAgB,EAChB,iBAAiB,EACjB,cAAc,GACf,MAAM,kBAAkB,CAAC;AAC1B,OAAO,EACL,SAAS,EACT,UAAU,EAEV,aAAa,EAEb,SAAS,EAET,YAAY,GAEb,MAAM,8BAA8B,CAAC;AACtC,wCAAwC;AACxC,cAAc,qCAAqC,CAAC;AACpD,cAAc,sBAAsB,CAAC;AACrC,cAAc,0BAA0B,CAAC;AACzC,cAAc,yBAAyB,CAAC;AACxC,cAAc,oBAAoB,CAAC;AACnC,cAAc,4BAA4B,CAAC;AAC3C,cAAc,4BAA4B,CAAC;AAC3C,cAAc,oBAAoB,CAAC;AACnC,cAAc,wBAAwB,CAAC;AACvC,cAAc,uBAAuB,CAAC;AACtC,cAAc,kBAAkB,CAAC;AACjC,cAAc,0BAA0B,CAAC;AAEzC,OAAO,EACL,gBAAgB,EAChB,eAAe,EACf,aAAa,EACb,aAAa,GACd,MAAM,mBAAmB,CAAC;AAK3B,oCAAoC;AACpC,OAAO,EACL,2BAA2B,EAC3B,yBAAyB,EACzB,gBAAgB,EAChB,cAAc,EACd,wBAAwB,GACzB,MAAM,0BAA0B,CAAC;AAElC,qEAAqE;AACrE,OAAO,EACL,0BAA0B,EAC1B,wBAAwB,EACxB,iBAAiB,EACjB,cAAc,EACd,kBAAkB,EAClB,oBAAoB,EACpB,iBAAiB,EACjB,iBAAiB,GAClB,MAAM,iCAAiC,CAAC;AACzC,OAAO,EACL,UAAU,EACV,aAAa,EACb,cAAc,EACd,iBAAiB,EACjB,eAAe,EACf,qBAAqB,GACtB,MAAM,oBAAoB,CAAC;AAC5B,OAAO,EAAE,iBAAiB,EAAE,MAAM,4BAA4B,CAAC;AAC/D,OAAO,EACL,gBAAgB,EAChB,WAAW,EACX,gBAAgB,GACjB,MAAM,uBAAuB,CAAC;AAC/B,OAAO,EAAE,mBAAmB,EAAE,OAAO,EAAE,OAAO,EAAE,MAAM,wBAAwB,CAAC"}

package/esm/io/from_ngff_zarr-browser.d.ts

@@ -1,7 +1,7 @@
 import * as zarr from "zarrita";
-import { Multiscales } from "../types/multiscales.js";
+import { NgffMultiscales } from "../types/multiscales.js";
 export type { ChunkCache } from "../utils/worker_pool.js";
-export interface FromNgffZarrOptions {
+export interface FromOmeZarrOptions {
     /** Enable schema validation of OME-Zarr metadata. */
     validate?: boolean;
     /** Expected OME-Zarr version. */
@@ -16,12 +16,16 @@ export interface FromNgffZarrOptions {
      */
     cache?: import("../utils/worker_pool.js").ChunkCache;
 }
+/** @deprecated Use {@link FromOmeZarrOptions} instead. */
+export type FromNgffZarrOptions = FromOmeZarrOptions;
 export type MemoryStore = Map<string, Uint8Array>;
 /**
- * Browser-compatible version of fromNgffZarr.
+ * Browser-compatible version of fromOmeZarr.
  * Supports HTTP/HTTPS URLs, MemoryStore (Map), FetchStore, and any
  * zarrita-compatible Readable store (e.g. TiffStore from @fideus-labs/fiff).
  * Does NOT support local file paths (use the full version in Node.js/Deno).
  */
-export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromNgffZarrOptions): Promise<Multiscales>;
+export declare function fromOmeZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromOmeZarrOptions): Promise<NgffMultiscales>;
+/** @deprecated Use {@link fromOmeZarr} instead. */
+export declare const fromNgffZarr: typeof fromOmeZarr;
 //# sourceMappingURL=from_ngff_zarr-browser.d.ts.map

package/esm/io/from_ngff_zarr-browser.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"from_ngff_zarr-browser.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr-browser.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAGhC,OAAO,EAAE,eAAe,EAAE,MAAM,yBAAyB,CAAC;AAM1D,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,kBAAkB;IACjC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,0DAA0D;AAC1D,MAAM,MAAM,mBAAmB,GAAG,kBAAkB,CAAC;AAErD,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD;;;;;GAKG;AACH,wBAAsB,WAAW,CAC/B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,QAAQ,EAC7D,OAAO,GAAE,kBAAuB,GAC/B,OAAO,CAAC,eAAe,CAAC,CAmO1B;AAED,mDAAmD;AACnD,eAAO,MAAM,YAAY,oBAAc,CAAC"}

package/esm/io/from_ngff_zarr-browser.js

@@ -4,16 +4,16 @@
 // (which contains Node.js-specific modules like node:fs, node:buffer, node:path)
 import * as zarr from "zarrita";
 import { MetadataSchema } from "../schemas/zarr_metadata.js";
-import { Multiscales } from "../types/multiscales.js";
+import { NgffMultiscales } from "../types/multiscales.js";
 import { NgffImage } from "../types/ngff_image.js";
 import { extractMethodMetadata } from "../utils/parse_metadata.js";
 /**
- * Browser-compatible version of fromNgffZarr.
+ * Browser-compatible version of fromOmeZarr.
  * Supports HTTP/HTTPS URLs, MemoryStore (Map), FetchStore, and any
  * zarrita-compatible Readable store (e.g. TiffStore from @fideus-labs/fiff).
  * Does NOT support local file paths (use the full version in Node.js/Deno).
  */
-export async function fromNgffZarr(store, options = {}) {
+export async function fromOmeZarr(store, options = {}) {
     const validate = options.validate ?? false;
     const version = options.version;
     try {
@@ -179,7 +179,7 @@ export async function fromNgffZarr(store, options = {}) {
         if (methodMetadata) {
             metadata.metadata = methodMetadata;
         }
-        return new Multiscales({
+        return new NgffMultiscales({
             images,
             metadata,
             scaleFactors: undefined,
@@ -191,4 +191,6 @@ export async function fromNgffZarr(store, options = {}) {
         throw new Error(`Failed to read OME-Zarr: ${error instanceof Error ? error.message : String(error)}`);
     }
 }
+/** @deprecated Use {@link fromOmeZarr} instead. */
+export const fromNgffZarr = fromOmeZarr;
 //# sourceMappingURL=from_ngff_zarr-browser.js.map

package/esm/io/from_ngff_zarr-browser.js.map

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package/esm/io/from_ngff_zarr.d.ts

@@ -1,7 +1,7 @@
 import * as zarr from "zarrita";
-import { Multiscales } from "../types/multiscales.js";
+import { NgffMultiscales } from "../types/multiscales.js";
 export type { ChunkCache } from "../utils/worker_pool.js";
-export interface FromNgffZarrOptions {
+export interface FromOmeZarrOptions {
     /** Enable schema validation of OME-Zarr metadata. */
     validate?: boolean;
     /** Expected OME-Zarr version. */
@@ -16,7 +16,11 @@ export interface FromNgffZarrOptions {
      */
     cache?: import("../utils/worker_pool.js").ChunkCache;
 }
+/** @deprecated Use {@link FromOmeZarrOptions} instead. */
+export type FromNgffZarrOptions = FromOmeZarrOptions;
 export type MemoryStore = Map<string, Uint8Array>;
-export declare function fromNgffZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromNgffZarrOptions): Promise<Multiscales>;
+export declare function fromOmeZarr(store: string | MemoryStore | zarr.FetchStore | zarr.Readable, options?: FromOmeZarrOptions): Promise<NgffMultiscales>;
+/** @deprecated Use {@link fromOmeZarr} instead. */
+export declare const fromNgffZarr: typeof fromOmeZarr;
 export declare function readArrayData(storePath: string, arrayPath: string, selection?: (number | null)[]): Promise<unknown>;
 //# sourceMappingURL=from_ngff_zarr.d.ts.map

package/esm/io/from_ngff_zarr.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"from_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,EAAE,WAAW,EAAE,MAAM,yBAAyB,CAAC;AAYtD,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,mBAAmB;IAClC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD,wBAAsB,YAAY,CAEhC,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,QAAQ,EAC7D,OAAO,GAAE,mBAAwB,GAChC,OAAO,CAAC,WAAW,CAAC,CAqItB;AAED,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,SAAS,EAAE,MAAM,EACjB,SAAS,CAAC,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,GAC5B,OAAO,CAAC,OAAO,CAAC,CAmClB"}
+{"version":3,"file":"from_ngff_zarr.d.ts","sourceRoot":"","sources":["../../src/io/from_ngff_zarr.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,EAAE,eAAe,EAAE,MAAM,yBAAyB,CAAC;AAY1D,YAAY,EAAE,UAAU,EAAE,MAAM,yBAAyB,CAAC;AAE1D,MAAM,WAAW,kBAAkB;IACjC,qDAAqD;IACrD,QAAQ,CAAC,EAAE,OAAO,CAAC;IACnB,iCAAiC;IACjC,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB;;;;;;;OAOG;IACH,KAAK,CAAC,EAAE,OAAO,yBAAyB,EAAE,UAAU,CAAC;CACtD;AAED,0DAA0D;AAC1D,MAAM,MAAM,mBAAmB,GAAG,kBAAkB,CAAC;AAErD,MAAM,MAAM,WAAW,GAAG,GAAG,CAAC,MAAM,EAAE,UAAU,CAAC,CAAC;AAElD,wBAAsB,WAAW,CAE/B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,GAAG,IAAI,CAAC,QAAQ,EAC7D,OAAO,GAAE,kBAAuB,GAC/B,OAAO,CAAC,eAAe,CAAC,CAqI1B;AAED,mDAAmD;AACnD,eAAO,MAAM,YAAY,oBAAc,CAAC;AAExC,wBAAsB,aAAa,CACjC,SAAS,EAAE,MAAM,EACjB,SAAS,EAAE,MAAM,EACjB,SAAS,CAAC,EAAE,CAAC,MAAM,GAAG,IAAI,CAAC,EAAE,GAC5B,OAAO,CAAC,OAAO,CAAC,CAmClB"}

package/esm/io/from_ngff_zarr.js

@@ -1,12 +1,12 @@
 // SPDX-FileCopyrightText: Copyright (c) Fideus Labs LLC
 // SPDX-License-Identifier: MIT
 import * as zarr from "zarrita";
-import { Multiscales } from "../types/multiscales.js";
+import { NgffMultiscales } from "../types/multiscales.js";
 import { NgffVersion } from "../types/supported_versions.js";
 import { fromZarrAttrsV04, fromZarrAttrsV05, } from "../utils/from_zarr_attrs.js";
 import { detectVersion, extractMethodMetadata, } from "../utils/parse_metadata.js";
 import { zarrGet } from "../utils/worker_pool.js";
-export async function fromNgffZarr(
+export async function fromOmeZarr(
 // Also accepts FileSystemStore, ZipFileStore, or any zarrita Readable store
 store, options = {}) {
     const validate = options.validate ?? false;
@@ -102,7 +102,7 @@ store, options = {}) {
         if (methodMetadata) {
             metadata.metadata = methodMetadata;
         }
-        return new Multiscales({
+        return new NgffMultiscales({
             images,
             metadata,
             scaleFactors: undefined,
@@ -114,6 +114,8 @@ store, options = {}) {
         throw new Error(`Failed to read OME-Zarr: ${error instanceof Error ? error.message : String(error)}`);
     }
 }
+/** @deprecated Use {@link fromOmeZarr} instead. */
+export const fromNgffZarr = fromOmeZarr;
 export async function readArrayData(storePath, arrayPath, selection) {
     try {
         const store = new zarr.FetchStore(storePath);

package/esm/io/from_ngff_zarr.js.map

@@ -1 +1 @@
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package/esm/io/to_ngff_zarr-browser.d.ts

@@ -1,17 +1,26 @@
 import * as zarr from "zarrita";
-import type { Multiscales } from "../types/multiscales.js";
+import type { NgffMultiscales } from "../types/multiscales.js";
+import type { ZarrCodec } from "../utils/codecs.js";
 import type { MemoryStore } from "./from_ngff_zarr-browser.js";
 export { isOzxPath } from "./rfc9_zip.js";
-export interface ToNgffZarrOptions {
+export interface ToOmeZarrOptions {
     overwrite?: boolean;
     version?: "0.4" | "0.5";
     chunksPerShard?: number | number[] | Record<string, number>;
+    /**
+     * Custom codec pipeline for array compression. When omitted the default
+     * ``blosc(zstd)`` pipeline from {@link defaultCodecs} is used. Use
+     * {@link codecFromName} or {@link bytesOnlyCodecs} to build common pipelines.
+     */
+    codecs?: ZarrCodec[];
 }
+/** @deprecated Use {@link ToOmeZarrOptions} instead. */
+export type ToNgffZarrOptions = ToOmeZarrOptions;
 /**
  * Options for writing to .ozx (RFC-9) format.
  * Note: chunksPerShard is NOT supported for .ozx files and will throw an error.
  */
-export interface ToNgffZarrOzxOptions {
+export interface ToOmeZarrOzxOptions {
     /** List of RFC numbers to enable (e.g., [4] for RFC 4 anatomical orientation) */
     enabledRfcs?: number[] | undefined;
     /**
@@ -23,12 +32,16 @@ export interface ToNgffZarrOzxOptions {
      */
     onProgress?: ((completedChunks: number, totalChunks: number) => void) | undefined;
 }
+/** @deprecated Use {@link ToOmeZarrOzxOptions} instead. */
+export type ToNgffZarrOzxOptions = ToOmeZarrOzxOptions;
 /**
- * Browser-compatible version of toNgffZarr.
+ * Browser-compatible version of toOmeZarr.
  * Only supports MemoryStore (Map) for writing.
  * Does NOT support local file paths or HTTP URLs (use the full version in Node.js/Deno).
  */
-export declare function toNgffZarr(store: string | MemoryStore | zarr.FetchStore, multiscales: Multiscales, options?: ToNgffZarrOptions): Promise<void>;
+export declare function toOmeZarr(store: string | MemoryStore | zarr.FetchStore, multiscales: NgffMultiscales, options?: ToOmeZarrOptions): Promise<void>;
+/** @deprecated Use {@link toOmeZarr} instead. */
+export declare const toNgffZarr: typeof toOmeZarr;
 /**
  * Create OME-Zarr .ozx ZIP data (RFC-9) - Browser version.
  *
@@ -39,11 +52,13 @@ export declare function toNgffZarr(store: string | MemoryStore | zarr.FetchStore
  * Note: Sharding is NOT supported because zarrita does not currently
  * support writing shards. If you need sharding, use the Python implementation.
  *
- * @param multiscales - Multiscales data to write
+ * @param multiscales - NgffMultiscales data to write
  * @param options - Options for writing
  * @returns ZIP file data as Uint8Array
  *
  * @see https://ngff.openmicroscopy.org/rfc/9/index.html
  */
-export declare function toNgffZarrOzx(multiscales: Multiscales, _options?: ToNgffZarrOzxOptions): Promise<Uint8Array>;
+export declare function toOmeZarrOzx(multiscales: NgffMultiscales, _options?: ToOmeZarrOzxOptions): Promise<Uint8Array>;
+/** @deprecated Use {@link toOmeZarrOzx} instead. */
+export declare const toNgffZarrOzx: typeof toOmeZarrOzx;
 //# sourceMappingURL=to_ngff_zarr-browser.d.ts.map

package/esm/io/to_ngff_zarr-browser.d.ts.map

@@ -1 +1 @@
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+{"version":3,"file":"to_ngff_zarr-browser.d.ts","sourceRoot":"","sources":["../../src/io/to_ngff_zarr-browser.ts"],"names":[],"mappings":"AAIA,OAAO,KAAK,IAAI,MAAM,SAAS,CAAC;AAEhC,OAAO,KAAK,EAAE,eAAe,EAAE,MAAM,yBAAyB,CAAC;AAE/D,OAAO,KAAK,EAAE,SAAS,EAAE,MAAM,oBAAoB,CAAC;AAGpD,OAAO,KAAK,EAAE,WAAW,EAAE,MAAM,6BAA6B,CAAC;AAI/D,OAAO,EAAE,SAAS,EAAE,MAAM,eAAe,CAAC;AAE1C,MAAM,WAAW,gBAAgB;IAC/B,SAAS,CAAC,EAAE,OAAO,CAAC;IACpB,OAAO,CAAC,EAAE,KAAK,GAAG,KAAK,CAAC;IACxB,cAAc,CAAC,EAAE,MAAM,GAAG,MAAM,EAAE,GAAG,MAAM,CAAC,MAAM,EAAE,MAAM,CAAC,CAAC;IAC5D;;;;OAIG;IACH,MAAM,CAAC,EAAE,SAAS,EAAE,CAAC;CACtB;AAED,wDAAwD;AACxD,MAAM,MAAM,iBAAiB,GAAG,gBAAgB,CAAC;AAEjD;;;GAGG;AACH,MAAM,WAAW,mBAAmB;IAClC,iFAAiF;IACjF,WAAW,CAAC,EAAE,MAAM,EAAE,GAAG,SAAS,CAAC;IACnC;;;;;;OAMG;IACH,UAAU,CAAC,EACP,CAAC,CAAC,eAAe,EAAE,MAAM,EAAE,WAAW,EAAE,MAAM,KAAK,IAAI,CAAC,GACxD,SAAS,CAAC;CACf;AAED,2DAA2D;AAC3D,MAAM,MAAM,oBAAoB,GAAG,mBAAmB,CAAC;AAEvD;;;;GAIG;AACH,wBAAsB,SAAS,CAC7B,KAAK,EAAE,MAAM,GAAG,WAAW,GAAG,IAAI,CAAC,UAAU,EAC7C,WAAW,EAAE,eAAe,EAC5B,OAAO,GAAE,gBAAqB,GAC7B,OAAO,CAAC,IAAI,CAAC,CA2Ff;AAED,iDAAiD;AACjD,eAAO,MAAM,UAAU,kBAAY,CAAC;AA2VpC;;;;;;;;;;;;;;;GAeG;AACH,wBAAsB,YAAY,CAChC,WAAW,EAAE,eAAe,EAC5B,QAAQ,GAAE,mBAAwB,GACjC,OAAO,CAAC,UAAU,CAAC,CAmBrB;AAED,oDAAoD;AACpD,eAAO,MAAM,aAAa,qBAAe,CAAC"}

package/esm/io/to_ngff_zarr-browser.js

@@ -6,14 +6,14 @@ import * as zarr from "zarrita";
 import { defaultCodecs } from "../utils/codecs.js";
 import { createWriteQueue, zarrGet, zarrSet } from "../utils/worker_pool.js";
 import { memoryStoreToZip } from "./rfc9_zip.js";
-import { writeMultiscalesToMemoryStore } from "./to_ngff_zarr_ozx_common.js";
+import { writeNgffMultiscalesToMemoryStore } from "./to_ngff_zarr_ozx_common.js";
 export { isOzxPath } from "./rfc9_zip.js";
 /**
- * Browser-compatible version of toNgffZarr.
+ * Browser-compatible version of toOmeZarr.
  * Only supports MemoryStore (Map) for writing.
  * Does NOT support local file paths or HTTP URLs (use the full version in Node.js/Deno).
  */
-export async function toNgffZarr(store, multiscales, options = {}) {
+export async function toOmeZarr(store, multiscales, options = {}) {
     const _overwrite = options.overwrite ?? true;
     const _version = options.version ?? "0.4";
     try {
@@ -77,13 +77,16 @@ export async function toNgffZarr(store, multiscales, options = {}) {
             if (!dataset) {
                 throw new Error(`No dataset configuration found for image ${i}`);
             }
-            await _writeImage(rootGroup, image, dataset.path);
+            await _writeImage(rootGroup, image, dataset.path, undefined, // onProgress
+            options.codecs);
         }
     }
     catch (error) {
         throw new Error(`Failed to write OME-Zarr: ${error instanceof Error ? error.message : String(error)}`);
     }
 }
+/** @deprecated Use {@link toOmeZarr} instead. */
+export const toNgffZarr = toOmeZarr;
 function _convertDtypeToZarrType(dtype) {
     // Map common numpy/LazyArray dtypes to zarrita data types
     const dtypeMap = {
@@ -141,7 +144,7 @@ function getTypedArrayConstructor(dtype) {
         throw new Error(`Unsupported data type for typed array: ${dtype}`);
     }
 }
-async function _writeImage(group, image, arrayPath, onProgress) {
+async function _writeImage(group, image, arrayPath, onProgress, codecs) {
     try {
         const chunks = getChunksFromImage(image);
         // Convert LazyArray dtype to zarrita DataType
@@ -154,7 +157,7 @@ async function _writeImage(group, image, arrayPath, onProgress) {
             data_type: zarrDataType,
             chunk_shape: chunks,
             fill_value: 0,
-            codecs: defaultCodecs(zarrDataType),
+            codecs: codecs ?? defaultCodecs(zarrDataType),
         });
         await _writeArrayData(zarrArray, image, onProgress);
     }
@@ -338,20 +341,22 @@ function calculateChunkStride(chunkShape) {
  * Note: Sharding is NOT supported because zarrita does not currently
  * support writing shards. If you need sharding, use the Python implementation.
  *
- * @param multiscales - Multiscales data to write
+ * @param multiscales - NgffMultiscales data to write
  * @param options - Options for writing
  * @returns ZIP file data as Uint8Array
  *
  * @see https://ngff.openmicroscopy.org/rfc/9/index.html
  */
-export async function toNgffZarrOzx(multiscales, _options = {}) {
+export async function toOmeZarrOzx(multiscales, _options = {}) {
     const enabledRfcs = _options.enabledRfcs;
     // Create a memory store to hold the zarr data
     const memoryStore = new Map();
     // Use the shared write function
-    await writeMultiscalesToMemoryStore(memoryStore, multiscales, enabledRfcs, _writeImage, _options.onProgress ?? null);
+    await writeNgffMultiscalesToMemoryStore(memoryStore, multiscales, enabledRfcs, _writeImage, _options.onProgress ?? null);
     // Convert the memory store to ZIP data
     const zipData = memoryStoreToZip(memoryStore, { version: "0.5" });
     return zipData;
 }
+/** @deprecated Use {@link toOmeZarrOzx} instead. */
+export const toNgffZarrOzx = toOmeZarrOzx;
 //# sourceMappingURL=to_ngff_zarr-browser.js.map

package/esm/io/to_ngff_zarr-browser.js.map

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package/esm/io/to_ngff_zarr.d.ts

@@ -1,7 +1,8 @@
 import * as zarr from "zarrita";
-import type { Multiscales } from "../types/multiscales.js";
+import type { NgffMultiscales } from "../types/multiscales.js";
+import type { ZarrCodec } from "../utils/codecs.js";
 import type { MemoryStore } from "./from_ngff_zarr.js";
-export interface ToNgffZarrOptions {
+export interface ToOmeZarrOptions {
     overwrite?: boolean;
     /**
      * OME-Zarr version to write. Defaults to "0.5" for regular Zarr files.
@@ -13,12 +14,20 @@ export interface ToNgffZarrOptions {
     chunksPerShard?: number | number[] | Record<string, number>;
     /** List of RFC numbers to enable (e.g., [4] for RFC 4 anatomical orientation) */
     enabledRfcs?: number[];
+    /**
+     * Custom codec pipeline for array compression. When omitted the default
+     * ``blosc(zstd)`` pipeline from {@link defaultCodecs} is used. Use
+     * {@link codecFromName} or {@link bytesOnlyCodecs} to build common pipelines.
+     */
+    codecs?: ZarrCodec[];
 }
+/** @deprecated Use {@link ToOmeZarrOptions} instead. */
+export type ToNgffZarrOptions = ToOmeZarrOptions;
 /**
  * Options for writing to .ozx (RFC-9) format.
  * Note: chunksPerShard is NOT supported for .ozx files and will throw an error.
  */
-export interface ToNgffZarrOzxOptions {
+export interface ToOmeZarrOzxOptions {
     /** List of RFC numbers to enable (e.g., [4] for RFC 4 anatomical orientation) */
     enabledRfcs?: number[] | undefined;
     /**
@@ -30,6 +39,8 @@ export interface ToNgffZarrOzxOptions {
      */
     onProgress?: ((completedChunks: number, totalChunks: number) => void) | undefined;
 }
+/** @deprecated Use {@link ToOmeZarrOzxOptions} instead. */
+export type ToNgffZarrOzxOptions = ToOmeZarrOzxOptions;
 /**
  * Write multiscales data to an OME-Zarr store.
  *
@@ -40,22 +51,24 @@ export interface ToNgffZarrOzxOptions {
  * - An error is thrown if you explicitly specify a version other than "0.5"
  *
  * @param store - File path, MemoryStore, or FetchStore to write to
- * @param multiscales - Multiscales data to write
+ * @param multiscales - NgffMultiscales data to write
  * @param options - Writing options
  *
  * @example
  * ```typescript
  * // Writing to .ozx file - version 0.5 is used automatically
- * await toNgffZarr("output.ozx", multiscales);
+ * await toOmeZarr("output.ozx", multiscales);
  *
  * // Writing to regular zarr with version 0.5 (default)
- * await toNgffZarr("output.zarr", multiscales);
+ * await toOmeZarr("output.zarr", multiscales);
  *
  * // Writing to regular zarr with version 0.4
- * await toNgffZarr("output.zarr", multiscales, { version: "0.4" });
+ * await toOmeZarr("output.zarr", multiscales, { version: "0.4" });
  * ```
  */
-export declare function toNgffZarr(store: string | MemoryStore | zarr.FetchStore, multiscales: Multiscales, options?: ToNgffZarrOptions): Promise<void>;
+export declare function toOmeZarr(store: string | MemoryStore | zarr.FetchStore, multiscales: NgffMultiscales, options?: ToOmeZarrOptions): Promise<void>;
+/** @deprecated Use {@link toOmeZarr} instead. */
+export declare const toNgffZarr: typeof toOmeZarr;
 /**
  * Write OME-Zarr to .ozx ZIP file (RFC-9).
  *
@@ -70,13 +83,15 @@ export declare function toNgffZarr(store: string | MemoryStore | zarr.FetchStore
  * support writing shards. If you need sharding, use the Python implementation.
  *
  * @param path - Output .ozx file path
- * @param multiscales - Multiscales data to write
+ * @param multiscales - NgffMultiscales data to write
  * @param options - Options for writing
- * @throws Error if called in a browser environment (use toNgffZarrOzxData instead)
+ * @throws Error if called in a browser environment (use toOmeZarrOzxData instead)
  *
  * @see https://ngff.openmicroscopy.org/rfc/9/index.html
  */
-export declare function toNgffZarrOzx(path: string, multiscales: Multiscales, options?: ToNgffZarrOzxOptions): Promise<void>;
+export declare function toOmeZarrOzx(path: string, multiscales: NgffMultiscales, options?: ToOmeZarrOzxOptions): Promise<void>;
+/** @deprecated Use {@link toOmeZarrOzx} instead. */
+export declare const toNgffZarrOzx: typeof toOmeZarrOzx;
 /**
  * Create OME-Zarr .ozx ZIP data (RFC-9).
  *
@@ -84,11 +99,13 @@ export declare function toNgffZarrOzx(path: string, multiscales: Multiscales, op
  * the ZIP data as a Uint8Array. Useful for browser environments or
  * when you need the raw ZIP data.
  *
- * @param multiscales - Multiscales data to write
+ * @param multiscales - NgffMultiscales data to write
  * @param options - Options for writing
  * @returns ZIP file data as Uint8Array
  *
  * @see https://ngff.openmicroscopy.org/rfc/9/index.html
  */
-export declare function toNgffZarrOzxData(multiscales: Multiscales, options?: ToNgffZarrOzxOptions): Promise<Uint8Array>;
+export declare function toOmeZarrOzxData(multiscales: NgffMultiscales, options?: ToOmeZarrOzxOptions): Promise<Uint8Array>;
+/** @deprecated Use {@link toOmeZarrOzxData} instead. */
+export declare const toNgffZarrOzxData: typeof toOmeZarrOzxData;
 //# sourceMappingURL=to_ngff_zarr.d.ts.map

package/esm/io/to_ngff_zarr.d.ts.map

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