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feat: read_sampleinfo.R #3

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kopardev opened this issue Oct 4, 2023 · 2 comments · Fixed by #16
Closed

feat: read_sampleinfo.R #3

kopardev opened this issue Oct 4, 2023 · 2 comments · Fixed by #16
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@kopardev @kelly-sovacool
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reneeTools RepoName
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2023w52_1229

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kopardev commented Oct 4, 2023

Read tab delimited file with:

  • replicateName
  • condition or sampleName
  • ... all other columns ... could be used as batch in future

input: path to tsv
output: dataframe like coldata (see here)
@kopardev kopardev self-assigned this Oct 4, 2023
@kopardev kopardev added the reneeTools RepoName label Oct 4, 2023
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kopardev commented Oct 4, 2023

Add basic input file checks in the function ... like:

  • file exists
  • is readable, etc.

@kopardev kopardev added this to the 2023w41_1013 milestone Oct 9, 2023
@kelly-sovacool kelly-sovacool mentioned this issue Oct 11, 2023
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contrasts.tsv, groups.tsv, countmatrix.tsv -- make sure groups and contrasts exist.

@kopardev kopardev modified the milestones: 2023w41_1013, 2023w43_1027 Oct 23, 2023
@kelly-sovacool kelly-sovacool mentioned this issue Dec 29, 2023
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feat: create reneeDataSet class CCBR/reneeTools
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@kopardev @kelly-sovacool