Code

Yaml input#114

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andrewprzh merged 17 commits intomasterablab/IsoQuant:masterfrom yaml_inputablab/IsoQuant:yaml_inputCopy head branch name to clipboardNov 6, 2023

+537-186

Commits

Commits on Oct 26, 2023

• added option for yaml file, check that not both yaml and illumina bam are given

  

  rkpfeil

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  andrewprzh

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  db8e31c

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• First version of extracting long read files and names from yaml. Illumina bam not yet extracted

  

  rkpfeil

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  andrewprzh

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Commits on Nov 6, 2023

• Added illumina file to yaml input.

  

  rkpfeil

  authored and

  andrewprzh

  committed
  9a2e3b8

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• added multiple illumina bam files

  

  rkpfeil

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  andrewprzh

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  c8ae10b

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• do not aggregate counts in annotation-free mode

  andrewprzh

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  d482b29

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• added multiple illumina bams, changed readme to include yaml and illumina

  

  rkpfeil

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  andrewprzh

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  9c4d723

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• changed no files to critical, changed file name

  

  rkpfeil

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  andrewprzh

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  ad5bd73

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• changed file check to accomodate for multiple illumina bams

  

  rkpfeil

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  andrewprzh

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• adapting for multiple illumina bams with one sample

  

  rkpfeil

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  andrewprzh

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  48aaa8f

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• udate requirements

  andrewprzh

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  cfb5c85

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• Correcting test for single illumina file input, adding tests for multiple illumina file input

  

  rkpfeil

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  andrewprzh

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  228c198

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• renamed function

  

  rkpfeil

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  andrewprzh

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  5f0dd18

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• added illumina bam for bam file input

  

  rkpfeil

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  andrewprzh

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  5dc0b2f

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• switch to join

  andrewprzh

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  c0427e7

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• restructure input data in the readme

  andrewprzh

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  385bc96

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• added tests for Illumina and yaml input

  

  rkpfeil

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  andrewprzh

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  b505709

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• allow relative paths in yaml config

  andrewprzh

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