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Commits on Sep 14, 2024

• Reset metabat2 min contig length to 1500 if contigsminlength < 1500

  gongyh

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Commits on Aug 22, 2024

• Improve README

  eikematthias

  committed
  eda8cec

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• remove groupTuple function for single-assembly to accelerate workflow

  eikematthias

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Commits on Aug 19, 2024

• allow for the parameter gtdbtk_reference to be a specific release or just the parent directory of the specific release that can be downloaded to it

  eikematthias

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  2fdc9d3

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Commits on Aug 15, 2024

• when SRA is used, create input channel from collected file with raw inputs

  eikematthias

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  bf0b86c

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Commits on Aug 14, 2024

• possible fix for StackOverFlow error by removing reads-array as input for groupTuple

  eikematthias

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  c6e2055

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• let concoct scripts no longer use user libraries

  eikematthias

  committed
  fbc2a35

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Commits on Aug 12, 2024

• specify how to install nextflow and java without conda

  eikematthias

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  4402259

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Commits on Aug 9, 2024

• adding check for host genomes

  eikematthias

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Commits on Aug 8, 2024

• fixed output name

  eikematthias

  committed
  0718ecc

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• update logic when updating metaphlan and humann db in parallel

  eikematthias

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  303bcfc

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• updatemetaphlan and updatehumann do not perform analysis anymore

  eikematthias

  committed
  3b83da3

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• adjusting error messages

  eikematthias

  committed
  7785afb

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• additional checks for databases, adding continue flag for gtdbtk download

  eikematthias

  committed
  23940e5

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• clean sylph code, updategtdbtk now calls assembly module if set

  eikematthias

  committed
  1d6c080

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• now mentioning the profile medcluster

  eikematthias

  committed
  eb08eb9

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• Merge branch 'master' into docs

  eikematthias

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  9f831f7

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• Merge branch 'master' into interleaved

  eikematthias

  committed
  2f9cf1b

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Commits on Aug 7, 2024

• interleaved sequencing files can now be used as input reads, too

  eikematthias

  committed
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Commits on Jul 23, 2024

• add examplary singularity run command to readme

  eikematthias

  committed
  e6c9d59

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Commits on Jul 12, 2024

• Listing salmon database parameter in usage page

  eikematthias

  committed
  2df6ffd

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• adding default sylph database

  eikematthias

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  614a2b9

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• updating README

  eikematthias

  committed
  411763a

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Commits on Jul 4, 2024

• fixing typos

  eikematthias

  committed
  f596dfb

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• reordering readme

  eikematthias

  committed
  29b2ad9

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• update to custom.config and after quickstart step

  eikematthias

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  17b990c

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• minimal executable example in quickstart

  eikematthias

  committed
  0c7aeee

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• fixed readme link to installation docs in quick start (#16)

  eikematthias

  authored
  adf5ed7

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• fixed readme link to installation docs in quick start

  eikematthias

  committed
  0d68e79

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• Updating the docs for SRA quick start and how to create a config file

  eikematthias

  committed
  7c4eb6c

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• Updated Readme Quickstart

  eikematthias

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  65873d3

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• Updated README.md

  eikematthias

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  2836075

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• Update README.md

  eikematthias

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Commits on Mar 22, 2024

• error fixes

  eikematthias

  committed
  b7eb46e

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• Merge branch 'dev' of github.com:ikmb/TOFU-MAaPO into dev

  eikematthias

  committed
  6cf4013

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