Class BackendService

Hierarchy

• Shape<
      "@genotype/BackendService",
      {
          kind: "none"
          | "node-native"
          | "wasm";
          grepBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              pattern: Uint8Array,
              options: GrepBatchOptions,
          ): Effect<Uint8Array<ArrayBufferLike>, BackendError>;
          findPatternBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              pattern: Uint8Array,
              options: FindPatternBatchOptions,
          ): Effect<PatternSearchResult, BackendError>;
          transformBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              op: TransformOp,
          ): Effect<TransformResult, BackendError>;
          removeGapsBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              gapChars: string,
          ): Effect<TransformResult, BackendError>;
          replaceAmbiguousBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              replacement: string,
          ): Effect<TransformResult, BackendError>;
          replaceInvalidBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              mode: ValidationMode,
              replacement: string,
          ): Effect<TransformResult, BackendError>;
          classifyBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
          ): Effect<ClassifyResult, BackendError>;
          checkValidBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              mode: ValidationMode,
          ): Effect<Uint8Array<ArrayBufferLike>, BackendError>;
          qualityAvgBatch(
              quality: Uint8Array,
              offsets: Uint32Array,
              asciiOffset: number,
          ): Effect<Float64Array<ArrayBufferLike>, BackendError>;
          qualityTrimBatch(
              quality: Uint8Array,
              offsets: Uint32Array,
              asciiOffset: number,
              threshold: number,
              windowSize: number,
              trimStart: boolean,
              trimEnd: boolean,
          ): Effect<Uint32Array<ArrayBufferLike>, BackendError>;
          qualityBinBatch(
              quality: Uint8Array,
              offsets: Uint32Array,
              boundaries: Uint8Array,
              representatives: Uint8Array,
          ): Effect<TransformResult, BackendError>;
          sequenceMetricsBatch(
              sequences: Uint8Array,
              seqOffsets: Uint32Array,
              quality: Uint8Array,
              qualOffsets: Uint32Array,
              metricFlags: number,
              asciiOffset: number,
          ): Effect<SequenceMetricsResult, BackendError>;
          translateBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              translationLut: Uint8Array,
              startMask: Uint8Array,
              alternativeStartMask: Uint8Array,
              options: TranslateBatchOptions,
          ): Effect<TransformResult, BackendError>;
          hashBatch(
              sequences: Uint8Array,
              offsets: Uint32Array,
              caseInsensitive: boolean,
          ): Effect<Uint8Array<ArrayBufferLike>, BackendError>;
          createAlignmentReaderFromPath(
              path: string,
          ): Effect<AlignmentReaderHandle, BackendError>;
          createAlignmentReaderFromBytes(
              bytes: Uint8Array,
          ): Effect<AlignmentReaderHandle, BackendError>;
          createFastqReaderFromPath(
              path: string,
          ): Effect<FastqReaderHandle, BackendError>;
          createFastqReaderFromBytes(
              bytes: Uint8Array,
          ): Effect<FastqReaderHandle, BackendError>;
          createFastaReaderFromPath(
              path: string,
          ): Effect<FastaReaderHandle, BackendError>;
          createFastaReaderFromBytes(
              bytes: Uint8Array,
          ): Effect<FastaReaderHandle, BackendError>;
          createFastqWriter(
              path: string | null,
              compress: boolean,
          ): Effect<FastqWriterHandle, BackendError>;
          createFastaWriter(
              path: string | null,
              compress: boolean,
              lineWidth: number,
          ): Effect<FastaWriterHandle, BackendError>;
      },
      this,
  >
  • BackendService