Code

Add UMI tools#435

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Merged

grst merged 17 commits intonf-core:devnf-core/rnaseq:devfrom grst:add-umi-toolsgrst/rnaseq:add-umi-toolsCopy head branch name to clipboardJul 27, 2020

+326-49

Commits

Commits on Jul 8, 2020

• Draft UMI-tools extract step.

  grst

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  3334f16

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• Handle file publishing for UMI extract step

  grst

  committed
  ae29eb2

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• Fix barcode pattern in gz test config

  grst

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• Add umitools dedup step.

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  grst

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  40f32db

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• Don't run UMI tools on transcriptome BAM when there is none

  grst

  committed
  4cc881e

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• Don't attempt to run RSEM when no transcriptome BAM available

  grst

  committed
  1c44020

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• Reformat misaligned-indentation and overly long lines

  grst

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  81cbe14

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• Fix nf-core#432

  grst

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  c5188f7

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• Fix rebase

  grst

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  dc18540

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• Fix gtf/fasta flow when additional reference is used.

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  grst

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Commits on Jul 9, 2020

• Add umi_tools to scrape software version

  grst

  committed
  b5c6df1

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• Update docs

  grst

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Commits on Jul 17, 2020

• Fix merge_rsem_gene process in main.nf

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  amayer21

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  grst

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  9cb7a36

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Commits on Jul 27, 2020

• merge RSEM counts and TPMs - add description count output in doc

  

  Alice Mayer

  authored and

  grst

  committed
  863afba

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• typo in output.md

  

  amayer21

  authored and

  grst

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• Update CHANGELOG.md

  

  amayer21

  authored and

  grst

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  dcfb8e2

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• Merge branch 'dev' into add-umi-tools

  grst

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