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• Trimmomatic
  ...(using phred + 33 or phred + 64 quality scores, depending on the Illumina pipeline used), either uncompressed or gzipp'ed FASTQ. Use of gzip format is determi
  4 KB (522 words) - 20:52, 12 August 2022
• Galaxy
  ...ed collaborative environment, Galaxy's work history sharing and analytical pipeline building, as well as publishing and sharing the results in a convenient and
  4 KB (562 words) - 18:05, 9 November 2022
• Appreci8
  Appreci8 is a variant calling pipeline for detecting single nucleotide variants (SNVs) and short indels (up to 30
  4 KB (561 words) - 14:25, 12 August 2022
• GATK
  ...plementary tools to those available in those two packages. Our SNP calling pipeline (Q score recalibration -> multiple sequence realignment -> snp/index callin
  4 KB (540 words) - 16:53, 15 August 2022
• Biology
  ...turn, will provide the hardware and software support for the data analysis pipeline they create for you.
  4 KB (665 words) - 21:23, 14 December 2022
• Parabricks
  ...line and somatic analysis. The core of the Parabricks software is its data pipeline which takes raw data and transforms it according to the user's requirements
  4 KB (574 words) - 21:25, 14 December 2022
• Rnalysis
  If you use the Limma-Voom differential expression pipeline in your research, please cite:
  5 KB (648 words) - 16:12, 25 April 2023
• AlphaFold
  This package provides an implementation of the inference pipeline of AlphaFold v2.3. This is a completely new model that was entered in CASP1
  6 KB (832 words) - 15:38, 2 February 2024
• OrthoMCL
  ...-- that creates a suitable orthomcl.config file and automates much of the pipeline is provided:
  5 KB (748 words) - 22:40, 28 January 2024

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