cheshire.likelihood.LikelihoodKernel.scala Maven / Gradle / Ivy

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/*
 * Copyright 2021 Arman Bilge
 *
 * Licensed under the Apache License, Version 2.0 (the "License");
 * you may not use this file except in compliance with the License.
 * You may obtain a copy of the License at
 *
 *     http://www.apache.org/licenses/LICENSE-2.0
 *
 * Unless required by applicable law or agreed to in writing, software
 * distributed under the License is distributed on an "AS IS" BASIS,
 * WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
 * See the License for the specific language governing permissions and
 * limitations under the License.
 */

package cheshire.likelihood

import cats.effect.kernel.Resource
import scodec.bits.BitVector

trait LikelihoodKernel[F[_], R, -N]:

  def mkPartition(
      stateCount: N,
      categoryCount: Int,
      sequences: IndexedSeq[BitVector],
      siteWeights: IndexedSeq[Int]
  ): Resource[F, PartitionKernel[F, R]]